• using R Under development (unstable) (2025-09-11 r88813)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-15 (Debian 15.2.0-3) 15.2.0     GNU Fortran (Debian 15.2.0-3) 15.2.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8
• checking for file ‘o2plsda/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘o2plsda’ version ‘0.0.25’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [1s/1s] OK
• 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 serialization versions ... OK
• checking whether package ‘o2plsda’ can be installed ... OK See the install log for details.
• used C++ compiler: ‘g++-15 (Debian 15.2.0-3) 15.2.0’
• checking package directory ... OK
• checking for future file timestamps ... 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 ... [1s/2s] OK
• checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
• checking whether the package can be unloaded cleanly ... [1s/1s] OK
• checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
• checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
• checking loading without being on the library search path ... [1s/1s] 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 ... [9s/12s] OK
• checking Rd files ... [0s/0s] 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 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 $(LAPACK_LIBS) ... OK
• checking use of PKG_*FLAGS in Makefiles ... OK
• checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [2s/3s] ERROR Running examples in ‘o2plsda-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: plot.o2plsda > ### Title: Score, VIP or loading plot for the O2PLS results > ### Aliases: plot.o2plsda > > ### ** Examples > > X <- matrix(rnorm(50),10,5) > Y <- matrix(rnorm(50),10,5) > fit <- o2pls(X,Y,2,1,1) > yy <- rep(c(0,1),5) > fit0 <- oplsda(fit,yy,2) > plot(fit0, type="score", group = factor(yy)) Error in `stat_ellipse()`: ! Problem while computing stat. ℹ Error occurred in the 3rd layer. Caused by error in `setup_params()`: ! The package "MASS" is required for calculating ellipses with `type =   "t"`. Backtrace:      ▆   1. ├─base (local) `<fn>`(x)   2. ├─ggplot2 (local) `print.ggplot2::ggplot`(x)   3. │ ├─ggplot2::ggplot_build(x)   4. │ └─ggplot2 (local) `ggplot_build.ggplot2::ggplot`(x)   5. │ └─ggplot2:::by_layer(...)   6. │ ├─rlang::try_fetch(...)   7. │ │ ├─base::tryCatch(...)   8. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)   9. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])  10. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)  11. │ │ └─base::withCallingHandlers(...)  12. │ └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])  13. │ └─l$compute_statistic(d, layout)  14. │ └─ggplot2 (local) compute_statistic(..., self = self)  15. │ └─self$stat$setup_params(data, self$stat_params)  16. │ └─ggplot2 (local) setup_params(...)  17. │ └─rlang::check_installed("MASS", "for calculating ellipses with `type = \"t\"`.")  18. │ └─base::stop(cnd)  19. └─rlang (local) `<fn>`(`<rlb_r___>`)  20. └─handlers[[1L]](cnd)  21. └─cli::cli_abort(...)  22. └─rlang::abort(...) Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [7s/10s] ERROR Error(s) in re-building vignettes:   ... --- re-building ‘o2plsda.Rmd’ using knitr Quitting from o2plsda.Rmd:91-96 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'o2plsda.Rmd' failed with diagnostics: Problem while computing stat. ℹ Error occurred in the 3rd layer. Caused by error in `setup_params()`: ! The package "MASS" is required for calculating ellipses with `type =   "t"`. --- failed re-building ‘o2plsda.Rmd’ SUMMARY: processing the following file failed:   ‘o2plsda.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [5s/6s] OK
• checking HTML version of manual ... [1s/2s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 ERRORs