- using R version 4.3.1 (2023-06-16)
- using platform: aarch64-apple-darwin20 (64-bit)
- R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
- running under: macOS Ventura 13.4
- using session charset: UTF-8
- checking for file ‘abn/DESCRIPTION’ ... OK
- this is package ‘abn’ version ‘3.0.6’
- package encoding: UTF-8
- checking package namespace information ... OK
- checking package dependencies ... NOTE
Package suggested but not available for checking: ‘INLA’
- 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 ‘abn’ can be installed ... [46s/54s] OK
See the install log for details.
- used C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
- used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
- used SDK: ‘MacOSX11.3.sdk’
- checking installed package size ... NOTE
installed size is 13.2Mb
sub-directories of 1Mb or more:
data 1.0Mb
extdata 2.9Mb
libs 8.0Mb
- 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 R files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... [1s/2s] OK
- checking whether the package can be loaded with stated dependencies ... [1s/2s] OK
- checking whether the package can be unloaded cleanly ... [1s/2s] OK
- checking whether the namespace can be loaded with stated dependencies ... [1s/2s] OK
- checking whether the namespace can be unloaded cleanly ... [1s/2s] OK
- checking loading without being on the library search path ... [1s/2s] OK
- checking startup messages can be suppressed ... [1s/2s] 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 ... [8s/8s] OK
- checking Rd files ... [0s/0s] OK
- checking Rd metadata ... 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 ... [0s/0s] OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking line endings in shell scripts ... OK
- checking line endings in C/C++/Fortran sources/headers ... OK
- checking line endings in Makefiles ... OK
- checking compilation flags in Makevars ... OK
- checking for GNU extensions in Makefiles ... OK
- checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
- checking use of PKG_*FLAGS in Makefiles ... OK
- checking compiled code ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking files in ‘vignettes’ ... OK
- checking examples ... [4s/5s] OK
- checking for unstated dependencies in ‘tests’ ... OK
- checking tests ... [324s/327s] ERROR
Running ‘testthat.R’ [324s/327s]
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
3. ├─base::suppressWarnings(...) at test-simulateabn.R:799:7
4. │ └─base::withCallingHandlers(...)
5. └─abn::buildScoreCache(...) at test-simulateabn.R:800:9
6. └─abn::buildScoreCache.bayes(...)
7. └─... %do% ...
8. └─e$fun(obj, substitute(ex), parent.frame(), e$data)
9. └─base::library(p, character.only = TRUE)
[ FAIL 30 | WARN 0 | SKIP 35 | PASS 485 ]
Deleting unused snapshots:
• tographviz/graph.dot
• tographviz/graph1.dot
• tographviz/graph_group.dot
Error: Test failures
Execution halted
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes in ‘inst/doc’ ... OK
- checking running R code from vignettes ... [1s/1s] NONE
‘data_simulation.Rmd’ using ‘UTF-8’... [0s/0s] OK
‘mixed_effect_BN_model.Rmd’ using ‘UTF-8’... [0s/0s] OK
‘model_specification.Rmd’ using ‘UTF-8’... [0s/0s] OK
‘multiprocessing.Rmd’ using ‘UTF-8’... [0s/0s] OK
‘paper.Rmd’ using ‘UTF-8’... [0s/0s] OK
‘parameter_learning.Rmd’ using ‘UTF-8’... [0s/0s] OK
‘quick_start_example.Rmd’ using ‘UTF-8’... [0s/0s] OK
‘structure_learning.Rmd’ using ‘UTF-8’... [0s/0s] OK
- checking re-building of vignette outputs ... [17s/17s] ERROR
Error(s) in re-building vignettes:
--- re-building ‘data_simulation.Rmd’ using rmarkdown
File fit_model-1.png not found in resource path
Error: processing vignette 'data_simulation.Rmd' failed with diagnostics:
pandoc document conversion failed with error 99
--- failed re-building ‘data_simulation.Rmd’
--- re-building ‘mixed_effect_BN_model.Rmd’ using rmarkdown
--- finished re-building ‘mixed_effect_BN_model.Rmd’
--- re-building ‘model_specification.Rmd’ using rmarkdown
--- finished re-building ‘model_specification.Rmd’
--- re-building ‘multiprocessing.Rmd’ using rmarkdown
File benchmarkBoxPlot-1.png not found in resource path
Error: processing vignette 'multiprocessing.Rmd' failed with diagnostics:
pandoc document conversion failed with error 99
--- failed re-building ‘multiprocessing.Rmd’
--- re-building ‘paper.Rmd’ using rmarkdown
--- finished re-building ‘paper.Rmd’
--- re-building ‘parameter_learning.Rmd’ using rmarkdown
File unnamed-chunk-3-1.png not found in resource path
Error: processing vignette 'parameter_learning.Rmd' failed with diagnostics:
pandoc document conversion failed with error 99
--- failed re-building ‘parameter_learning.Rmd’
--- re-building ‘quick_start_example.Rmd’ using rmarkdown
--- finished re-building ‘quick_start_example.Rmd’
--- re-building ‘structure_learning.Rmd’ using rmarkdown
--- finished re-building ‘structure_learning.Rmd’
SUMMARY: processing the following files failed:
‘data_simulation.Rmd’ ‘multiprocessing.Rmd’ ‘parameter_learning.Rmd’
Error: Vignette re-building failed.
Execution halted
- checking PDF version of manual ... [4s/4s] OK
- DONE
Status: 2 ERRORs, 2 NOTEs
- using check arguments '--no-clean-on-error '