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Last updated on 2026-09-26 17:52:16 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.4.0 | 8.51 | 339.60 | 348.11 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.4.0 | 6.78 | 320.30 | 327.08 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.4.0 | 7.00 | 187.99 | 194.99 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.4.0 | 228.44 | ERROR | |||
| r-devel-windows-x86_64 | 0.4.0 | 12.00 | 268.00 | 280.00 | ERROR | |
| r-patched-linux-x86_64 | 0.4.0 | 8.80 | 354.12 | 362.92 | ERROR | |
| r-release-linux-x86_64 | 0.4.0 | 9.39 | 351.22 | 360.61 | ERROR | |
| r-release-macos-arm64 | 0.4.0 | 2.00 | 134.00 | 136.00 | OK | |
| r-release-macos-x86_64 | 0.4.0 | 6.00 | 828.00 | 834.00 | OK | |
| r-release-windows-x86_64 | 0.4.0 | 11.00 | 252.00 | 263.00 | ERROR | |
| r-oldrel-macos-arm64 | 0.4.0 | OK | ||||
| r-oldrel-macos-x86_64 | 0.4.0 | 5.00 | 631.00 | 636.00 | OK | |
| r-oldrel-windows-x86_64 | 0.4.0 | 16.00 | 310.00 | 326.00 | ERROR |
Version: 0.4.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [177s/212s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.2
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
Start sampling
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 3.7e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.37 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1:
Chain 1:
Chain 1: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 1: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 1: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 1: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 1: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 1: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 1: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 1: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 1: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 1: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 1: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 1: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.284 seconds (Warm-up)
Chain 1: 0.125 seconds (Sampling)
Chain 1: 0.409 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2).
Chain 2:
Chain 2: Gradient evaluation took 2.7e-05 seconds
Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.27 seconds.
Chain 2: Adjust your expectations accordingly!
Chain 2:
Chain 2:
Chain 2: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 2: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 2: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 2: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 2: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 2: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 2: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 2: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 2: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 2: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 2: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 2: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 2:
Chain 2: Elapsed Time: 0.122 seconds (Warm-up)
Chain 2: 0.148 seconds (Sampling)
Chain 2: 0.27 seconds (Total)
Chain 2:
module glm loaded
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3509
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3015
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
##
## Markov Chain Monte Carlo Package (MCMCpack)
## Copyright (C) 2003-2026 Andrew D. Martin, Kevin M. Quinn, and Jong Hee Park
##
## Support provided by the U.S. National Science Foundation
## (Grants SES-0350646 and SES-0350613)
##
Attaching package: 'MCMCpack'
The following objects are masked from 'package:brms':
ddirichlet, rdirichlet
Loading required package: StanHeaders
rstan version 2.32.7 (Stan version 2.39.0)
For execution on a local, multicore CPU with excess RAM we recommend calling
options(mc.cores = parallel::detectCores()).
To avoid recompilation of unchanged Stan programs, we recommend calling
rstan_options(auto_write = TRUE)
For within-chain threading using `reduce_sum()` or `map_rect()` Stan functions,
change `threads_per_chain` option:
rstan_options(threads_per_chain = 1)
Attaching package: 'rstan'
The following object is masked from 'package:runjags':
extract
The following object is masked from 'package:R2jags':
traceplot
The following object is masked from 'package:coda':
traceplot
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `stanc()`:
! 0
Syntax error in 'string', line 4, column 33 to column 34, parsing error:
-------------------------------------------------
2: data {
3: int<lower=0> N;
4: int<lower=0,upper=1> volunteer[N];
^
5: vector[N] female;
6: vector[N] neuroticism;
-------------------------------------------------
Ill-formed declaration. ";" expected after variable declaration.
It looks like you are trying to use the old array syntax.
Please use the new syntax:
array[N] int<lower=0, upper=1> volunteer;
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─rstan::stan(...)
20. │ └─rstan::stan_model(...)
21. │ └─rstan::stanc(...)
22. │ └─base::stop(paste(model_cppcode$errors, collapse = "\n"))
23. └─base::.handleSimpleError(...)
24. └─testthat (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.4.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [205s/246s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.2
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
Start sampling
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 3.3e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.33 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1:
Chain 1:
Chain 1: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 1: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 1: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 1: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 1: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 1: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 1: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 1: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 1: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 1: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 1: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 1: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.138 seconds (Warm-up)
Chain 1: 0.137 seconds (Sampling)
Chain 1: 0.275 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2).
Chain 2:
Chain 2: Gradient evaluation took 2e-05 seconds
Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.2 seconds.
Chain 2: Adjust your expectations accordingly!
Chain 2:
Chain 2:
Chain 2: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 2: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 2: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 2: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 2: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 2: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 2: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 2: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 2: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 2: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 2: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 2: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 2:
Chain 2: Elapsed Time: 0.119 seconds (Warm-up)
Chain 2: 0.154 seconds (Sampling)
Chain 2: 0.273 seconds (Total)
Chain 2:
module glm loaded
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3509
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3015
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
##
## Markov Chain Monte Carlo Package (MCMCpack)
## Copyright (C) 2003-2026 Andrew D. Martin, Kevin M. Quinn, and Jong Hee Park
##
## Support provided by the U.S. National Science Foundation
## (Grants SES-0350646 and SES-0350613)
##
Attaching package: 'MCMCpack'
The following objects are masked from 'package:brms':
ddirichlet, rdirichlet
Loading required package: StanHeaders
rstan version 2.32.7 (Stan version 2.39.0)
For execution on a local, multicore CPU with excess RAM we recommend calling
options(mc.cores = parallel::detectCores()).
To avoid recompilation of unchanged Stan programs, we recommend calling
rstan_options(auto_write = TRUE)
For within-chain threading using `reduce_sum()` or `map_rect()` Stan functions,
change `threads_per_chain` option:
rstan_options(threads_per_chain = 1)
Attaching package: 'rstan'
The following object is masked from 'package:runjags':
extract
The following object is masked from 'package:R2jags':
traceplot
The following object is masked from 'package:coda':
traceplot
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `stanc()`:
! 0
Syntax error in 'string', line 4, column 33 to column 34, parsing error:
-------------------------------------------------
2: data {
3: int<lower=0> N;
4: int<lower=0,upper=1> volunteer[N];
^
5: vector[N] female;
6: vector[N] neuroticism;
-------------------------------------------------
Ill-formed declaration. ";" expected after variable declaration.
It looks like you are trying to use the old array syntax.
Please use the new syntax:
array[N] int<lower=0, upper=1> volunteer;
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─rstan::stan(...)
20. │ └─rstan::stan_model(...)
21. │ └─rstan::stanc(...)
22. │ └─base::stop(paste(model_cppcode$errors, collapse = "\n"))
23. └─base::.handleSimpleError(...)
24. └─testthat (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.4.0
Check: dependencies in R code
Result: NOTE
Namespaces in Imports field not imported from:
‘HDInterval’ ‘carData’ ‘rjags’
All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.4.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [70s/174s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.2
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
Start sampling
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 2.8e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.28 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1:
Chain 1:
Chain 1: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 1: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 1: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 1: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 1: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 1: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 1: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 1: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 1: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 1: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 1: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 1: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.283 seconds (Warm-up)
Chain 1: 0.292 seconds (Sampling)
Chain 1: 0.575 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2).
Chain 2:
Chain 2: Gradient evaluation took 2.3e-05 seconds
Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.23 seconds.
Chain 2: Adjust your expectations accordingly!
Chain 2:
Chain 2:
Chain 2: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 2: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 2: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 2: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 2: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 2: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 2: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 2: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 2: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 2: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 2: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 2: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 2:
Chain 2: Elapsed Time: 0.28 seconds (Warm-up)
Chain 2: 0.356 seconds (Sampling)
Chain 2: 0.636 seconds (Total)
Chain 2:
module glm loaded
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3509
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3015
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
##
## Markov Chain Monte Carlo Package (MCMCpack)
## Copyright (C) 2003-2026 Andrew D. Martin, Kevin M. Quinn, and Jong Hee Park
##
## Support provided by the U.S. National Science Foundation
## (Grants SES-0350646 and SES-0350613)
##
Attaching package: 'MCMCpack'
The following objects are masked from 'package:brms':
ddirichlet, rdirichlet
Loading required package: StanHeaders
rstan version 2.32.7 (Stan version 2.39.0)
For execution on a local, multicore CPU with excess RAM we recommend calling
options(mc.cores = parallel::detectCores()).
To avoid recompilation of unchanged Stan programs, we recommend calling
rstan_options(auto_write = TRUE)
For within-chain threading using `reduce_sum()` or `map_rect()` Stan functions,
change `threads_per_chain` option:
rstan_options(threads_per_chain = 1)
Attaching package: 'rstan'
The following object is masked from 'package:runjags':
extract
The following object is masked from 'package:R2jags':
traceplot
The following object is masked from 'package:coda':
traceplot
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `stanc()`:
! 0
Syntax error in 'string', line 4, column 33 to column 34, parsing error:
-------------------------------------------------
2: data {
3: int<lower=0> N;
4: int<lower=0,upper=1> volunteer[N];
^
5: vector[N] female;
6: vector[N] neuroticism;
-------------------------------------------------
Ill-formed declaration. ";" expected after variable declaration.
It looks like you are trying to use the old array syntax.
Please use the new syntax:
array[N] int<lower=0, upper=1> volunteer;
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─rstan::stan(...)
20. │ └─rstan::stan_model(...)
21. │ └─rstan::stanc(...)
22. │ └─base::stop(paste(model_cppcode$errors, collapse = "\n"))
23. └─base::.handleSimpleError(...)
24. └─testthat (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.4.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [109s/114s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.2
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
Start sampling
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 2.6e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.26 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1:
Chain 1:
Chain 1: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 1: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 1: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 1: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 1: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 1: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 1: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 1: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 1: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 1: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 1: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 1: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.092 seconds (Warm-up)
Chain 1: 0.093 seconds (Sampling)
Chain 1: 0.185 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2).
Chain 2:
Chain 2: Gradient evaluation took 1.9e-05 seconds
Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.19 seconds.
Chain 2: Adjust your expectations accordingly!
Chain 2:
Chain 2:
Chain 2: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 2: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 2: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 2: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 2: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 2: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 2: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 2: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 2: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 2: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 2: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 2: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 2:
Chain 2: Elapsed Time: 0.095 seconds (Warm-up)
Chain 2: 0.106 seconds (Sampling)
Chain 2: 0.201 seconds (Total)
Chain 2:
module glm loaded
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3509
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3015
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
##
## Markov Chain Monte Carlo Package (MCMCpack)
## Copyright (C) 2003-2026 Andrew D. Martin, Kevin M. Quinn, and Jong Hee Park
##
## Support provided by the U.S. National Science Foundation
## (Grants SES-0350646 and SES-0350613)
##
Attaching package: 'MCMCpack'
The following objects are masked from 'package:brms':
ddirichlet, rdirichlet
Loading required package: StanHeaders
rstan version 2.32.7 (Stan version 2.39.0)
For execution on a local, multicore CPU with excess RAM we recommend calling
options(mc.cores = parallel::detectCores()).
To avoid recompilation of unchanged Stan programs, we recommend calling
rstan_options(auto_write = TRUE)
For within-chain threading using `reduce_sum()` or `map_rect()` Stan functions,
change `threads_per_chain` option:
rstan_options(threads_per_chain = 1)
Attaching package: 'rstan'
The following object is masked from 'package:runjags':
extract
The following object is masked from 'package:R2jags':
traceplot
The following object is masked from 'package:coda':
traceplot
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `stanc()`:
! 0
Syntax error in 'string', line 4, column 33 to column 34, parsing error:
-------------------------------------------------
2: data {
3: int<lower=0> N;
4: int<lower=0,upper=1> volunteer[N];
^
5: vector[N] female;
6: vector[N] neuroticism;
-------------------------------------------------
Ill-formed declaration. ";" expected after variable declaration.
It looks like you are trying to use the old array syntax.
Please use the new syntax:
array[N] int<lower=0, upper=1> volunteer;
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─rstan::stan(...)
20. │ └─rstan::stan_model(...)
21. │ └─rstan::stanc(...)
22. │ └─base::stop(paste(model_cppcode$errors, collapse = "\n"))
23. └─base::.handleSimpleError(...)
24. └─testthat (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.4.0
Check: tests
Result: ERROR
Running 'testthat.R' [67s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.1
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
specified C++17
make cmd is
make -f "D:/RCompile/recent/R/etc/x64/Makeconf" -f "D:/RCompile/recent/R/share/make/winshlib.mk" CXX='$(CXX17) $(CXX17STD)' CXXFLAGS='$(CXX17FLAGS)' CXXPICFLAGS='$(CXX17PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX17LDFLAGS)' SHLIB_LD='$(SHLIB_CXX17LD)' SHLIB="file4be0c613a4aa5.dll" WIN=64 TCLBIN= OBJECTS="file4be0c613a4aa5.o"
make would use
make[1]: Entering directory '/d/temp/2026_09_24_01_50_00_23554/RtmpwT44FO'
g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I"D:/RCompile/CRANpkg/lib/4.7/Rcpp/include/" -I"D:/temp/2026_09_24_01_50_00_23554/Rtmpcze2tk/RLIBS_cb606b104c58/RcppEigen/include/" -I"D:/temp/2026_09_24_01_50_00_23554/Rtmpcze2tk/RLIBS_cb606b104c58/RcppEigen/include/unsupported" -I"D:/temp/2026_09_24_01_50_00_23554/Rtmpcze2tk/RLIBS_cb606b104c58/BH/include" -I"D:/RCompile/CRANpkg/lib/4.7/StanHeaders/include/src/" -I"D:/RCompile/CRANpkg/lib/4.7/StanHeaders/include/" -I"D:/RCompile/CRANpkg/lib/4.7/RcppParallel/include/" -DRCPP_PARALLEL_USE_TBB=1 -DTBB_INTERFACE_NEW -ID:/RCompile/CRANpkg/lib/4.7/RcppParallel/include -I"D:/RCompile/CRANpkg/lib/4.7/rstan/include" -DEIGEN_NO_DEBUG -DBOOST_DISABLE_ASSERTS -DBOOST_PENDING_INTEGER_LOG2_HPP -DSTAN_THREADS -DUSE_STANC3 -DSTRICT_R_HEADERS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -include "D:/RCompile/CRANpkg/lib/4.7/StanHeaders/include/stan/math/prim/fun/Eigen.hpp" -std=c++1y -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c file4be0c613a4aa5.cpp -o file4be0c613a4aa5.o
if test "zfile4be0c613a4aa5.o" != "z"; then \
if test -e "file4be0c613a4aa5-win.def"; then \
echo g++ -shared -s -static-libgcc -o file4be0c613a4aa5.dll file4be0c613a4aa5-win.def file4be0c613a4aa5.o "D:/RCompile/CRANpkg/lib/4.7/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.7/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R/bin/x64" -lR ; \
g++ -shared -s -static-libgcc -o file4be0c613a4aa5.dll file4be0c613a4aa5-win.def file4be0c613a4aa5.o "D:/RCompile/CRANpkg/lib/4.7/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.7/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R/bin/x64" -lR ; \
else \
echo EXPORTS > tmp.def; \
nm file4be0c613a4aa5.o | sed -n 's/^.* [BCDRT] / /p' | sed -e '/[.]refptr[.]/d' -e '/[.]weak[.]/d' | sed 's/[^ ][^ ]*/"&"/g' >> tmp.def; \
echo g++ -shared -s -static-libgcc -o file4be0c613a4aa5.dll tmp.def file4be0c613a4aa5.o "D:/RCompile/CRANpkg/lib/4.7/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.7/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R/bin/x64" -lR ; \
g++ -shared -s -static-libgcc -o file4be0c613a4aa5.dll tmp.def file4be0c613a4aa5.o "D:/RCompile/CRANpkg/lib/4.7/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.7/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.7/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R/bin/x64" -lR ; \
rm -f tmp.def; \
fi \
fi
make[1]: Leaving directory '/d/temp/2026_09_24_01_50_00_23554/RtmpwT44FO'
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `compileCode()`:
! del = model4be0c55287ba__namespace::model4be0c55287ba_; BaseRNG = boost::random::additive_combine_engine<boost::random::linear_congruential_engine<unsigned int, 40014, 0, 2147483563>, boost::random::linear_congruential_engine<unsigned int, 40692, 0, 2147483399> >]'
22 | return 0.5 * z.p.transpose() * z.inv_e_metric_ * z.p;
D:/RCompile/CRANpkg/lib/4.7/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
21 | double T(dense_e_point& z) {
D:/RCompile/CRANpkg/lib/4.7/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument 'Eigen::internal::packet_traits<double>::type' {aka '__m128d'} [-Wignored-attributes]
654 | return internal::first_aligned<int(unpacket_traits<DefaultPacketType>::alignment),Derived>(m);
| ^~~~~~~~~
make[1]: *** [D:/RCompile/recent/R/etc/x64/Makeconf:304: file4be0c613a4aa5.o] Error 1
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─brms::brm(...)
20. │ └─brms::do_call(compile_model, compile_args)
21. │ └─brms:::eval2(call, envir = args, enclos = envir)
22. │ └─base::eval(expr, envir, ...)
23. │ └─base::eval(expr, envir, ...)
24. │ └─brms (local) .fun(...)
25. │ └─brms (local) .compile_model(model, ...)
26. │ ├─brms:::eval_silent(...)
27. │ │ └─base::eval(expr, envir)
28. │ │ └─base::eval(expr, envir)
29. │ └─brms::do_call(rstan::stan_model, args)
30. │ └─brms:::eval2(call, envir = args, enclos = envir)
31. │ └─base::eval(expr, envir, ...)
32. │ └─base::eval(expr, envir, ...)
33. │ └─rstan (local) .fun(model_code = .x1)
34. │ └─rstan:::cxxfunctionplus(...)
35. │ ├─pkgbuild::with_build_tools(...)
36. │ │ └─pkgbuild:::withr_with_path(rtools_path(), code)
37. │ │ └─base::force(code)
38. │ └─inline::cxxfunction(...)
39. │ └─inline:::compileCode(f, code, language = language, verbose = verbose)
40. │ └─base::stop(...)
41. └─base::.handleSimpleError(...)
42. └─testthat (local) h(simpleError(msg, call))
43. └─cli::cli_abort(...)
44. └─rlang::abort(...)
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `sink()`:
! invalid connection
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─brms::brm(...)
20. │ └─brms::do_call(compile_model, compile_args)
21. │ └─brms:::eval2(call, envir = args, enclos = envir)
22. │ └─base::eval(expr, envir, ...)
23. │ └─base::eval(expr, envir, ...)
24. │ └─brms (local) .fun(...)
25. │ └─brms (local) .compile_model(model, ...)
26. │ ├─brms:::eval_silent(...)
27. │ │ └─base::eval(expr, envir)
28. │ │ └─base::eval(expr, envir)
29. │ └─brms::do_call(rstan::stan_model, args)
30. │ └─brms:::eval2(call, envir = args, enclos = envir)
31. │ └─base::eval(expr, envir, ...)
32. │ └─base::eval(expr, envir, ...)
33. │ └─rstan (local) .fun(model_code = .x1)
34. │ └─rstan:::cxxfunctionplus(...)
35. │ └─base::sink(type = "output")
36. └─base::.handleSimpleError(`<fn>`, "invalid connection", base::quote(sink(type = "output")))
37. └─testthat (local) h(simpleError(msg, call))
38. └─cli::cli_abort(...)
39. └─rlang::abort(...)
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.4.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [204s/254s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.2
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
Start sampling
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 4.1e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.41 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1:
Chain 1:
Chain 1: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 1: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 1: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 1: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 1: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 1: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 1: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 1: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 1: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 1: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 1: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 1: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.171 seconds (Warm-up)
Chain 1: 0.123 seconds (Sampling)
Chain 1: 0.294 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2).
Chain 2:
Chain 2: Gradient evaluation took 2.6e-05 seconds
Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.26 seconds.
Chain 2: Adjust your expectations accordingly!
Chain 2:
Chain 2:
Chain 2: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 2: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 2: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 2: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 2: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 2: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 2: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 2: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 2: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 2: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 2: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 2: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 2:
Chain 2: Elapsed Time: 0.122 seconds (Warm-up)
Chain 2: 0.136 seconds (Sampling)
Chain 2: 0.258 seconds (Total)
Chain 2:
module glm loaded
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3509
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3015
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
##
## Markov Chain Monte Carlo Package (MCMCpack)
## Copyright (C) 2003-2026 Andrew D. Martin, Kevin M. Quinn, and Jong Hee Park
##
## Support provided by the U.S. National Science Foundation
## (Grants SES-0350646 and SES-0350613)
##
Attaching package: 'MCMCpack'
The following objects are masked from 'package:brms':
ddirichlet, rdirichlet
Loading required package: StanHeaders
rstan version 2.32.7 (Stan version 2.39.0)
For execution on a local, multicore CPU with excess RAM we recommend calling
options(mc.cores = parallel::detectCores()).
To avoid recompilation of unchanged Stan programs, we recommend calling
rstan_options(auto_write = TRUE)
For within-chain threading using `reduce_sum()` or `map_rect()` Stan functions,
change `threads_per_chain` option:
rstan_options(threads_per_chain = 1)
Attaching package: 'rstan'
The following object is masked from 'package:runjags':
extract
The following object is masked from 'package:R2jags':
traceplot
The following object is masked from 'package:coda':
traceplot
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `stanc()`:
! 0
Syntax error in 'string', line 4, column 33 to column 34, parsing error:
-------------------------------------------------
2: data {
3: int<lower=0> N;
4: int<lower=0,upper=1> volunteer[N];
^
5: vector[N] female;
6: vector[N] neuroticism;
-------------------------------------------------
Ill-formed declaration. ";" expected after variable declaration.
It looks like you are trying to use the old array syntax.
Please use the new syntax:
array[N] int<lower=0, upper=1> volunteer;
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─rstan::stan(...)
20. │ └─rstan::stan_model(...)
21. │ └─rstan::stanc(...)
22. │ └─base::stop(paste(model_cppcode$errors, collapse = "\n"))
23. └─base::.handleSimpleError(...)
24. └─testthat (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.4.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [199s/267s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.2
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
Start sampling
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 3.7e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.37 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1:
Chain 1:
Chain 1: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 1: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 1: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 1: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 1: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 1: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 1: Iteration: 1001 / 2000 [ 50%] (Sampling)
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Chain 1: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 1: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 1: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 1: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.16 seconds (Warm-up)
Chain 1: 0.131 seconds (Sampling)
Chain 1: 0.291 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'anon_model' NOW (CHAIN 2).
Chain 2:
Chain 2: Gradient evaluation took 0.00146 seconds
Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 14.6 seconds.
Chain 2: Adjust your expectations accordingly!
Chain 2:
Chain 2:
Chain 2: Iteration: 1 / 2000 [ 0%] (Warmup)
Chain 2: Iteration: 200 / 2000 [ 10%] (Warmup)
Chain 2: Iteration: 400 / 2000 [ 20%] (Warmup)
Chain 2: Iteration: 600 / 2000 [ 30%] (Warmup)
Chain 2: Iteration: 800 / 2000 [ 40%] (Warmup)
Chain 2: Iteration: 1000 / 2000 [ 50%] (Warmup)
Chain 2: Iteration: 1001 / 2000 [ 50%] (Sampling)
Chain 2: Iteration: 1200 / 2000 [ 60%] (Sampling)
Chain 2: Iteration: 1400 / 2000 [ 70%] (Sampling)
Chain 2: Iteration: 1600 / 2000 [ 80%] (Sampling)
Chain 2: Iteration: 1800 / 2000 [ 90%] (Sampling)
Chain 2: Iteration: 2000 / 2000 [100%] (Sampling)
Chain 2:
Chain 2: Elapsed Time: 0.12 seconds (Warm-up)
Chain 2: 0.141 seconds (Sampling)
Chain 2: 0.261 seconds (Total)
Chain 2:
module glm loaded
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3509
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 5
Total graph size: 3015
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
Compiling model graph
Resolving undeclared variables
Allocating nodes
Graph information:
Observed stochastic nodes: 500
Unobserved stochastic nodes: 3
Total graph size: 3506
Initializing model
##
## Markov Chain Monte Carlo Package (MCMCpack)
## Copyright (C) 2003-2026 Andrew D. Martin, Kevin M. Quinn, and Jong Hee Park
##
## Support provided by the U.S. National Science Foundation
## (Grants SES-0350646 and SES-0350613)
##
Attaching package: 'MCMCpack'
The following objects are masked from 'package:brms':
ddirichlet, rdirichlet
Loading required package: StanHeaders
rstan version 2.32.7 (Stan version 2.39.0)
For execution on a local, multicore CPU with excess RAM we recommend calling
options(mc.cores = parallel::detectCores()).
To avoid recompilation of unchanged Stan programs, we recommend calling
rstan_options(auto_write = TRUE)
For within-chain threading using `reduce_sum()` or `map_rect()` Stan functions,
change `threads_per_chain` option:
rstan_options(threads_per_chain = 1)
Attaching package: 'rstan'
The following object is masked from 'package:runjags':
extract
The following object is masked from 'package:R2jags':
traceplot
The following object is masked from 'package:coda':
traceplot
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `stanc()`:
! 0
Syntax error in 'string', line 4, column 33 to column 34, parsing error:
-------------------------------------------------
2: data {
3: int<lower=0> N;
4: int<lower=0,upper=1> volunteer[N];
^
5: vector[N] female;
6: vector[N] neuroticism;
-------------------------------------------------
Ill-formed declaration. ";" expected after variable declaration.
It looks like you are trying to use the old array syntax.
Please use the new syntax:
array[N] int<lower=0, upper=1> volunteer;
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─rstan::stan(...)
20. │ └─rstan::stan_model(...)
21. │ └─rstan::stanc(...)
22. │ └─base::stop(paste(model_cppcode$errors, collapse = "\n"))
23. └─base::.handleSimpleError(...)
24. └─testthat (local) h(simpleError(msg, call))
25. └─cli::cli_abort(...)
26. └─rlang::abort(...)
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.4.0
Check: tests
Result: ERROR
Running 'testthat.R' [63s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.1
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
specified C++17
make cmd is
make -f "D:/RCompile/recent/R-4.6.1/etc/x64/Makeconf" -f "D:/RCompile/recent/R-4.6.1/share/make/winshlib.mk" CXX='$(CXX17) $(CXX17STD)' CXXFLAGS='$(CXX17FLAGS)' CXXPICFLAGS='$(CXX17PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX17LDFLAGS)' SHLIB_LD='$(SHLIB_CXX17LD)' SHLIB="file486dc540a7a18.dll" WIN=64 TCLBIN= OBJECTS="file486dc540a7a18.o"
make would use
make[1]: Entering directory '/d/temp/2026_09_15_23_01_57_27218/RtmpAViOw9'
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.6.1/include" -DNDEBUG -I"D:/RCompile/CRANpkg/lib/4.6/Rcpp/include/" -I"D:/temp/2026_09_15_23_01_57_27218/RtmpuwCElj/RLIBS_41c7883a140f/RcppEigen/include/" -I"D:/temp/2026_09_15_23_01_57_27218/RtmpuwCElj/RLIBS_41c7883a140f/RcppEigen/include/unsupported" -I"D:/temp/2026_09_15_23_01_57_27218/RtmpuwCElj/RLIBS_41c7883a140f/BH/include" -I"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/include/src/" -I"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/include/" -I"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/include/" -DRCPP_PARALLEL_USE_TBB=1 -DTBB_INTERFACE_NEW -ID:/RCompile/CRANpkg/lib/4.6/RcppParallel/include -I"D:/RCompile/CRANpkg/lib/4.6/rstan/include" -DEIGEN_NO_DEBUG -DBOOST_DISABLE_ASSERTS -DBOOST_PENDING_INTEGER_LOG2_HPP -DSTAN_THREADS -DUSE_STANC3 -DSTRICT_R_HEADERS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -include "D:/RCompile/CRANpkg/lib/4.6/StanHeaders/include/stan/math/prim/fun/Eigen.hpp" -std=c++1y -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c file486dc540a7a18.cpp -o file486dc540a7a18.o
if test "zfile486dc540a7a18.o" != "z"; then \
if test -e "file486dc540a7a18-win.def"; then \
echo g++ -shared -s -static-libgcc -o file486dc540a7a18.dll file486dc540a7a18-win.def file486dc540a7a18.o "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R-4.6.1/bin/x64" -lR ; \
g++ -shared -s -static-libgcc -o file486dc540a7a18.dll file486dc540a7a18-win.def file486dc540a7a18.o "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R-4.6.1/bin/x64" -lR ; \
else \
echo EXPORTS > tmp.def; \
nm file486dc540a7a18.o | sed -n 's/^.* [BCDRT] / /p' | sed -e '/[.]refptr[.]/d' -e '/[.]weak[.]/d' | sed 's/[^ ][^ ]*/"&"/g' >> tmp.def; \
echo g++ -shared -s -static-libgcc -o file486dc540a7a18.dll tmp.def file486dc540a7a18.o "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R-4.6.1/bin/x64" -lR ; \
g++ -shared -s -static-libgcc -o file486dc540a7a18.dll tmp.def file486dc540a7a18.o "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R-4.6.1/bin/x64" -lR ; \
rm -f tmp.def; \
fi \
fi
make[1]: Leaving directory '/d/temp/2026_09_15_23_01_57_27218/RtmpAViOw9'
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `compileCode()`:
! del486dc4bec2b4a__namespace::model486dc4bec2b4a_; BaseRNG = boost::random::additive_combine_engine<boost::random::linear_congruential_engine<unsigned int, 40014, 0, 2147483563>, boost::random::linear_congruential_engine<unsigned int, 40692, 0, 2147483399> >]'
22 | return 0.5 * z.p.transpose() * z.inv_e_metric_ * z.p;
D:/RCompile/CRANpkg/lib/4.6/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
21 | double T(dense_e_point& z) {
D:/RCompile/CRANpkg/lib/4.6/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument 'Eigen::internal::packet_traits<double>::type' {aka '__m128d'} [-Wignored-attributes]
654 | return internal::first_aligned<int(unpacket_traits<DefaultPacketType>::alignment),Derived>(m);
| ^~~~~~~~~
make[1]: *** [D:/RCompile/recent/R-4.6.1/etc/x64/Makeconf:304: file486dc540a7a18.o] Error 1
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─brms::brm(...)
20. │ └─brms::do_call(compile_model, compile_args)
21. │ └─brms:::eval2(call, envir = args, enclos = envir)
22. │ └─base::eval(expr, envir, ...)
23. │ └─base::eval(expr, envir, ...)
24. │ └─brms (local) .fun(...)
25. │ └─brms (local) .compile_model(model, ...)
26. │ ├─brms:::eval_silent(...)
27. │ │ └─base::eval(expr, envir)
28. │ │ └─base::eval(expr, envir)
29. │ └─brms::do_call(rstan::stan_model, args)
30. │ └─brms:::eval2(call, envir = args, enclos = envir)
31. │ └─base::eval(expr, envir, ...)
32. │ └─base::eval(expr, envir, ...)
33. │ └─rstan (local) .fun(model_code = .x1)
34. │ └─rstan:::cxxfunctionplus(...)
35. │ ├─pkgbuild::with_build_tools(...)
36. │ │ └─pkgbuild:::withr_with_path(rtools_path(), code)
37. │ │ └─base::force(code)
38. │ └─inline::cxxfunction(...)
39. │ └─inline:::compileCode(f, code, language = language, verbose = verbose)
40. │ └─base::stop(...)
41. └─base::.handleSimpleError(...)
42. └─testthat (local) h(simpleError(msg, call))
43. └─cli::cli_abort(...)
44. └─rlang::abort(...)
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `sink()`:
! invalid connection
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─brms::brm(...)
20. │ └─brms::do_call(compile_model, compile_args)
21. │ └─brms:::eval2(call, envir = args, enclos = envir)
22. │ └─base::eval(expr, envir, ...)
23. │ └─base::eval(expr, envir, ...)
24. │ └─brms (local) .fun(...)
25. │ └─brms (local) .compile_model(model, ...)
26. │ ├─brms:::eval_silent(...)
27. │ │ └─base::eval(expr, envir)
28. │ │ └─base::eval(expr, envir)
29. │ └─brms::do_call(rstan::stan_model, args)
30. │ └─brms:::eval2(call, envir = args, enclos = envir)
31. │ └─base::eval(expr, envir, ...)
32. │ └─base::eval(expr, envir, ...)
33. │ └─rstan (local) .fun(model_code = .x1)
34. │ └─rstan:::cxxfunctionplus(...)
35. │ └─base::sink(type = "output")
36. └─base::.handleSimpleError(`<fn>`, "invalid connection", base::quote(sink(type = "output")))
37. └─testthat (local) h(simpleError(msg, call))
38. └─cli::cli_abort(...)
39. └─rlang::abort(...)
Execution halted
Flavor: r-release-windows-x86_64
Version: 0.4.0
Check: tests
Result: ERROR
Running 'testthat.R' [78s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(BayesPostEst)
>
> test_check("BayesPostEst")
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.3.1
Loaded modules: basemod,bugs
Attaching package: 'R2jags'
The following object is masked from 'package:coda':
traceplot
Loading required package: Rcpp
Loading 'brms' package (version 2.23.0). Useful instructions
can be found by typing help('brms'). A more detailed introduction
to the package is available through vignette('brms_overview').
Attaching package: 'brms'
The following object is masked from 'package:stats':
ar
Compiling Stan program...
make cmd is
make -f "D:/RCompile/recent/R-4.5.3/etc/x64/Makeconf" -f "D:/RCompile/recent/R-4.5.3/share/make/winshlib.mk" CXX='$(CXX17) $(CXX17STD)' CXXFLAGS='$(CXX17FLAGS)' CXXPICFLAGS='$(CXX17PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX17LDFLAGS)' SHLIB_LD='$(SHLIB_CXX17LD)' SHLIB="file51cc452ed393d.dll" WIN=64 TCLBIN= OBJECTS="file51cc452ed393d.o"
make would use
make[1]: Entering directory '/d/temp/2026_09_23_09_31_10_28374/RtmpE5a3HS'
g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.5.3/include" -DNDEBUG -I"D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/" -I"D:/temp/2026_09_23_09_31_10_28374/Rtmpw7DHAp/RLIBS_2e3cc58a6340f/RcppEigen/include/" -I"D:/temp/2026_09_23_09_31_10_28374/Rtmpw7DHAp/RLIBS_2e3cc58a6340f/RcppEigen/include/unsupported" -I"D:/temp/2026_09_23_09_31_10_28374/Rtmpw7DHAp/RLIBS_2e3cc58a6340f/BH/include" -I"D:/RCompile/CRANpkg/lib/4.5/StanHeaders/include/src/" -I"D:/RCompile/CRANpkg/lib/4.5/StanHeaders/include/" -I"D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/" -DRCPP_PARALLEL_USE_TBB=1 -DTBB_INTERFACE_NEW -ID:/RCompile/CRANpkg/lib/4.5/RcppParallel/include -I"D:/RCompile/CRANpkg/lib/4.5/rstan/include" -DEIGEN_NO_DEBUG -DBOOST_DISABLE_ASSERTS -DBOOST_PENDING_INTEGER_LOG2_HPP -DSTAN_THREADS -DUSE_STANC3 -DSTRICT_R_HEADERS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -include "D:/RCompile/CRANpkg/lib/4.5/StanHeaders/include/stan/math/prim/fun/Eigen.hpp" -std=c++1y -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c file51cc452ed393d.cpp -o file51cc452ed393d.o
if test "zfile51cc452ed393d.o" != "z"; then \
if test -e "file51cc452ed393d-win.def"; then \
echo g++ -shared -s -static-libgcc -o file51cc452ed393d.dll file51cc452ed393d-win.def file51cc452ed393d.o "D:/RCompile/CRANpkg/lib/4.5/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.5/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R-4.5.3/bin/x64" -lR ; \
g++ -shared -s -static-libgcc -o file51cc452ed393d.dll file51cc452ed393d-win.def file51cc452ed393d.o "D:/RCompile/CRANpkg/lib/4.5/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.5/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R-4.5.3/bin/x64" -lR ; \
else \
echo EXPORTS > tmp.def; \
nm file51cc452ed393d.o | sed -n 's/^.* [BCDRT] / /p' | sed -e '/[.]refptr[.]/d' -e '/[.]weak[.]/d' | sed 's/[^ ][^ ]*/"&"/g' >> tmp.def; \
echo g++ -shared -s -static-libgcc -o file51cc452ed393d.dll tmp.def file51cc452ed393d.o "D:/RCompile/CRANpkg/lib/4.5/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.5/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R-4.5.3/bin/x64" -lR ; \
g++ -shared -s -static-libgcc -o file51cc452ed393d.dll tmp.def file51cc452ed393d.o "D:/RCompile/CRANpkg/lib/4.5/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.5/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64" -ltbb -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R-4.5.3/bin/x64" -lR ; \
rm -f tmp.def; \
fi \
fi
make[1]: Leaving directory '/d/temp/2026_09_23_09_31_10_28374/RtmpE5a3HS'
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `compileCode()`:
! del51cc444c76264__namespace::model51cc444c76264_; BaseRNG = boost::random::additive_combine_engine<boost::random::linear_congruential_engine<unsigned int, 40014, 0, 2147483563>, boost::random::linear_congruential_engine<unsigned int, 40692, 0, 2147483399> >]'
22 | return 0.5 * z.p.transpose() * z.inv_e_metric_ * z.p;
D:/RCompile/CRANpkg/lib/4.5/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
21 | double T(dense_e_point& z) {
D:/RCompile/CRANpkg/lib/4.5/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument 'Eigen::internal::packet_traits<double>::type' {aka '__m128d'} [-Wignored-attributes]
654 | return internal::first_aligned<int(unpacket_traits<DefaultPacketType>::alignment),Derived>(m);
| ^~~~~~~~~
make[1]: *** [D:/RCompile/recent/R-4.5.3/etc/x64/Makeconf:302: file51cc452ed393d.o] Error 1
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─brms::brm(...)
20. │ └─brms::do_call(compile_model, compile_args)
21. │ └─brms:::eval2(call, envir = args, enclos = envir)
22. │ └─base::eval(expr, envir, ...)
23. │ └─base::eval(expr, envir, ...)
24. │ └─brms (local) .fun(...)
25. │ └─brms (local) .compile_model(model, ...)
26. │ ├─brms:::eval_silent(...)
27. │ │ └─base::eval(expr, envir)
28. │ │ └─base::eval(expr, envir)
29. │ └─brms::do_call(rstan::stan_model, args)
30. │ └─brms:::eval2(call, envir = args, enclos = envir)
31. │ └─base::eval(expr, envir, ...)
32. │ └─base::eval(expr, envir, ...)
33. │ └─rstan (local) .fun(model_code = .x1)
34. │ └─rstan:::cxxfunctionplus(...)
35. │ ├─pkgbuild::with_build_tools(...)
36. │ │ └─pkgbuild:::withr_with_path(rtools_path(), code)
37. │ │ └─base::force(code)
38. │ └─inline::cxxfunction(...)
39. │ └─inline:::compileCode(f, code, language = language, verbose = verbose)
40. │ └─base::stop(...)
41. └─base::.handleSimpleError(...)
42. └─testthat (local) h(simpleError(msg, call))
43. └─cli::cli_abort(...)
44. └─rlang::abort(...)
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `sink()`:
! invalid connection
Backtrace:
▆
1. ├─testthat::test_check("BayesPostEst")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─base::lapply(r_scripts, source) at ./setup.R:24:1
15. │ └─base (local) FUN(X[[i]], ...)
16. │ ├─base::withVisible(eval(ei, envir))
17. │ └─base::eval(ei, envir)
18. │ └─base::eval(ei, envir)
19. ├─brms::brm(...)
20. │ └─brms::do_call(compile_model, compile_args)
21. │ └─brms:::eval2(call, envir = args, enclos = envir)
22. │ └─base::eval(expr, envir, ...)
23. │ └─base::eval(expr, envir, ...)
24. │ └─brms (local) .fun(...)
25. │ └─brms (local) .compile_model(model, ...)
26. │ ├─brms:::eval_silent(...)
27. │ │ └─base::eval(expr, envir)
28. │ │ └─base::eval(expr, envir)
29. │ └─brms::do_call(rstan::stan_model, args)
30. │ └─brms:::eval2(call, envir = args, enclos = envir)
31. │ └─base::eval(expr, envir, ...)
32. │ └─base::eval(expr, envir, ...)
33. │ └─rstan (local) .fun(model_code = .x1)
34. │ └─rstan:::cxxfunctionplus(...)
35. │ └─base::sink(type = "output")
36. └─base::.handleSimpleError(`<fn>`, "invalid connection", base::quote(sink(type = "output")))
37. └─testthat (local) h(simpleError(msg, call))
38. └─cli::cli_abort(...)
39. └─rlang::abort(...)
Execution halted
Flavor: r-oldrel-windows-x86_64
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