- using R Under development (unstable) (2024-10-18 r87246)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
gcc-14 (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
- running under: Fedora Linux 36 (Workstation Edition)
- using session charset: UTF-8
- using option ‘--no-stop-on-test-error’
- checking for file ‘rbmi/DESCRIPTION’ ... OK
- this is package ‘rbmi’ version ‘1.3.0’
- package encoding: UTF-8
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking for hidden files and directories ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking whether package ‘rbmi’ can be installed ... [16s/23s] OK
See the install log for details.
- checking package directory ... OK
- checking ‘build’ directory ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking for left-over files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking code files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... OK
- checking whether the package can be loaded with stated dependencies ... OK
- checking whether the package can be unloaded cleanly ... OK
- checking whether the namespace can be loaded with stated dependencies ... OK
- checking whether the namespace can be unloaded cleanly ... OK
- checking loading without being on the library search path ... OK
- checking whether startup messages can be suppressed ... OK
- checking use of S3 registration ... OK
- checking dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... [20s/25s] OK
- checking Rd files ... OK
- checking Rd metadata ... OK
- checking Rd line widths ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of ‘data’ directory ... OK
- checking data for non-ASCII characters ... OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking R/sysdata.rda ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking files in ‘vignettes’ ... OK
- checking examples ... OK
- checking for unstated dependencies in ‘tests’ ... OK
- checking tests ... [179s/286s] ERROR
Running ‘testthat.R’ [179s/285s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(rbmi)
>
> test_check("rbmi")
mmrm() registered as emmeans extension
[ FAIL 4 | WARN 0 | SKIP 13 | PASS 1243 ]
══ Skipped tests (13) ══════════════════════════════════════════════════════════
• On CRAN (1): 'test-mmrm.R:337:5'
• is_full_test() is not TRUE (12): 'test-draws.R:115:5',
'test-fullusage.R:43:5', 'test-fullusage.R:117:5', 'test-fullusage.R:209:5',
'test-fullusage.R:300:5', 'test-fullusage.R:431:5', 'test-fullusage.R:520:5',
'test-fullusage.R:673:5', 'test-mcmc.R:327:5', 'test-mcmc.R:502:5',
'test-parallel.R:8:5', 'test-reproducibility.R:9:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-draws.R:144:9'): bayes ─────────────────────────────────────────
Error in `fit_mcmc(designmat = model_df_scaled[, -1, drop = FALSE], outcome = model_df_scaled[,
1, drop = TRUE], group = data2[[vars$group]], visit = data2[[vars$visit]],
subjid = data2[[vars$subjid]], method = method, quiet = quiet)`: unable to load shared object '/tmp/Rtmp6JHXvN/working_dir/RtmpLi3mIW/file2c4d0d44b32deb.so':
libunwind.so.1: cannot open shared object file: No such file or directory
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-draws.R:143:5
2. │ └─base::withCallingHandlers(...)
3. ├─rbmi::draws(d$dat, d$dat_ice, d$vars, meth, quiet = TRUE) at test-draws.R:144:9
4. └─rbmi:::draws.bayes(d$dat, d$dat_ice, d$vars, meth, quiet = TRUE)
5. └─rbmi:::fit_mcmc(...)
── Error ('test-mcmc.R:108:13'): Verbose suppression works ─────────────────────
Error in `fit_mcmc(designmat = model_df_scaled[, -1, drop = FALSE], outcome = model_df_scaled[,
1, drop = TRUE], group = data2[[vars$group]], visit = data2[[vars$visit]],
subjid = data2[[vars$subjid]], method = method, quiet = quiet)`: unable to load shared object '/tmp/Rtmp6JHXvN/working_dir/RtmpLi3mIW/file2c4d0d1bfd5711.so':
libunwind.so.1: cannot open shared object file: No such file or directory
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-mcmc.R:106:5
2. │ └─base::withCallingHandlers(...)
3. ├─utils::capture.output(...) at test-mcmc.R:107:9
4. │ └─base::withVisible(...elt(i))
5. ├─rbmi::draws(...) at test-mcmc.R:108:13
6. └─rbmi:::draws.bayes(...)
7. └─rbmi:::fit_mcmc(...)
── Error ('test-print.R:102:9'): print - bayesian ──────────────────────────────
Error in `fit_mcmc(designmat = model_df_scaled[, -1, drop = FALSE], outcome = model_df_scaled[,
1, drop = TRUE], group = data2[[vars$group]], visit = data2[[vars$visit]],
subjid = data2[[vars$subjid]], method = method, quiet = quiet)`: unable to load shared object '/tmp/Rtmp6JHXvN/working_dir/RtmpLi3mIW/file2c4d0d2dfb205a.so':
libunwind.so.1: cannot open shared object file: No such file or directory
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-print.R:101:5
2. │ └─base::withCallingHandlers(...)
3. ├─rbmi::draws(...) at test-print.R:102:9
4. └─rbmi:::draws.bayes(...)
5. └─rbmi:::fit_mcmc(...)
── Error ('test-reproducibility.R:121:9'): bayes - set.seed produces identical results ──
Error in `fit_mcmc(designmat = model_df_scaled[, -1, drop = FALSE], outcome = model_df_scaled[,
1, drop = TRUE], group = data2[[vars$group]], visit = data2[[vars$visit]],
subjid = data2[[vars$subjid]], method = method, quiet = quiet)`: unable to load shared object '/tmp/Rtmp6JHXvN/working_dir/RtmpLi3mIW/file2c4d0d5bf4b5bc.so':
libunwind.so.1: cannot open shared object file: No such file or directory
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-reproducibility.R:120:5
2. │ └─base::withCallingHandlers(...)
3. ├─rbmi::draws(dat, dat_ice, vars, meth, quiet = TRUE) at test-reproducibility.R:121:9
4. └─rbmi:::draws.bayes(dat, dat_ice, vars, meth, quiet = TRUE)
5. └─rbmi:::fit_mcmc(...)
[ FAIL 4 | WARN 0 | SKIP 13 | PASS 1243 ]
Error: Test failures
Execution halted
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [16s/22s] OK
- checking PDF version of manual ... [17s/27s] OK
- checking HTML version of manual ... [8s/13s] OK
- checking for non-standard things in the check directory ... OK
- checking for detritus in the temp directory ... OK
- DONE
Status: 1 ERROR