• using R Under development (unstable) (2025-12-04 r89097)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)     GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘targeted/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘targeted’ version ‘0.6’
• 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 ‘targeted’ can be installed ... [301s/280s] OK See the install log for details.
• used C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
• 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 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 ... [41s/51s] 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 data for ASCII and uncompressed saves ... 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 $(LAPACK_LIBS) ... OK
• checking use of PKG_*FLAGS in Makefiles ... OK
• checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [54s/71s] ERROR Running examples in ‘targeted-Ex.R’ failed The error most likely occurred in: > ### Name: learner_xgboost > ### Title: Construct a learner > ### Aliases: learner_xgboost > > ### ** Examples > > n <- 1e3 > x1 <- rnorm(n, sd = 2) > x2 <- rnorm(n) > lp <- x2*x1 + cos(x1) > yb <- rbinom(n, 1, lava::expit(lp)) > y <- lp + rnorm(n, sd = 0.5**.5) > d0 <- data.frame(y, yb, x1, x2) > > # regression > lr <- learner_xgboost(y ~ x1 + x2, nrounds = 5) > lr$estimate(d0) Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized), :   Passed unrecognized parameters: verbose. This warning will become an error in a future version. Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :   Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version. Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :   Parameter 'eta' has been renamed to 'learning_rate'. This warning will become an error in a future version. Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :   Parameter 'lambda' has been renamed to 'reg_lambda'. This warning will become an error in a future version. Error in (function (x, y, objective = NULL, nrounds = 100L, max_depth = NULL, :   argument "y" is missing, with no default Calls: <Anonymous> ... <Anonymous> -> process.y.margin.and.objective -> NROW Execution halted
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [37s/48s] ERROR   Running ‘tinytest.R’ [37s/47s] Running the tests in ‘tests/tinytest.R’ failed. Complete output:   >   > if (requireNamespace("tinytest", quietly = TRUE)) {   +   + ## future::plan("sequential")   + Sys.setenv("OMP_THREAD_LIMIT" = 2)   + options(Ncpus = 1)   + data.table::setDTthreads(1)   +   + tinytest::test_package("targeted")   + }      test_cate.R................... 0 tests   test_cate.R................... 0 tests   test_cate.R................... 0 tests   test_cate.R................... 0 tests   test_cate.R................... 0 tests   test_cate.R................... 0 tests   test_cate.R................... 0 tests   test_cate.R................... 0 tests   test_cate.R................... 0 tests   test_cate.R................... 1 tests [0;32mOK [0m   test_cate.R................... 2 tests [0;32mOK [0m   test_cate.R................... 2 tests [0;32mOK [0m   test_cate.R................... 11 tests [0;32mOK [0m   test_cate.R................... 11 tests [0;32mOK [0m   test_cate.R................... 23 tests [0;32mOK [0m   test_cate.R................... 23 tests 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Warning messages:   1: In throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized), :     Passed unrecognized parameters: verbose. This warning will become an error in a future version.   2: In throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :     Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version.   3: In throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :     Parameter 'eta' has been renamed to 'learning_rate'. This warning will become an error in a future version.   4: In throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '", :     Parameter 'lambda' has been renamed to 'reg_lambda'. This warning will become an error in a future version.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [42s/56s] ERROR Error(s) in re-building vignettes: --- re-building ‘predictionclass.Rmd’ using rmarkdown Quitting from predictionclass.Rmd:143-145 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! argument "y" is missing, with no default --- Backtrace:     ▆  1. └─lr_xgboost$estimate(data = pbc)  2. └─private$fitfun(data, ...)  3. ├─base::structure(do.call(private$init.estimate, args), design = summary(xx))  4. ├─base::do.call(private$init.estimate, args)  5. └─targeted (local) `<fn>`(...)  6. ├─base::do.call(...)  7. └─xgboost (local) `<fn>`(...)  8. └─xgboost:::process.y.margin.and.objective(...)  9. └─base::NROW(y) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'predictionclass.Rmd' failed with diagnostics: argument "y" is missing, with no default --- failed re-building ‘predictionclass.Rmd’ --- re-building ‘riskregression.Rmd’ using rmarkdown --- finished re-building ‘riskregression.Rmd’ SUMMARY: processing the following file failed:   ‘predictionclass.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [11s/16s] OK
• checking HTML version of manual ... [10s/16s] OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 3 ERRORs