• using R Under development (unstable) (2025-12-18 r89199)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     Debian clang version 21.1.7 (1)     Debian flang version 21.1.7 (1)
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8
• checking for file ‘spect/DESCRIPTION’ ... OK
• this is package ‘spect’ version ‘1.0’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [0s/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 whether package ‘spect’ can be installed ... OK See the install log for details.
• 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 ... [5s/8s] OK
• checking whether the package can be loaded with stated dependencies ... [5s/7s] OK
• checking whether the package can be unloaded cleanly ... [4s/6s] OK
• checking whether the namespace can be loaded with stated dependencies ... [5s/6s] OK
• checking whether the namespace can be unloaded cleanly ... [5s/7s] OK
• checking loading without being on the library search path ... [5s/6s] 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 ... [23s/30s] OK
• checking Rd files ... [0s/1s] 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [6s/9s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [32s/43s] ERROR   Running ‘testthat.R’ [32s/43s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > # This file is part of the standard setup for testthat.   > # It is recommended that you do not modify it.   > #   > # Where should you do additional test configuration?   > # Learn more about the roles of various files in:   > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview   > # * https://testthat.r-lib.org/articles/special-files.html   >   > library(testthat)   > library(spect)   Loading required package: futile.logger   Loading required package: dplyr      Attaching package: 'dplyr'      The following objects are masked from 'package:stats':          filter, lag      The following objects are masked from 'package:base':          intersect, setdiff, setequal, union      >   > test_check("spect")   Loading required package: ggplot2   Loading required package: lattice   Saving _problems/test-evaluate_model-33.R   [ FAIL 1 | WARN 73 | SKIP 0 | PASS 29 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-evaluate_model.R:30:3'): evaluate_model throws an error for prediction times outside of the data window ──   Expected `... <- NULL` not to throw any errors.   Actually got a <simpleError> with message:     attempt access index 10/10 in VECTOR_ELT   Backtrace:        ▆     1. ├─testthat::expect_error(...) at test-evaluate_model.R:30:3     2. │ └─testthat:::expect_condition_matching_(...)     3. │ └─testthat:::quasi_capture(...)     4. │ ├─testthat (local) .capture(...)     5. │ │ └─base::withCallingHandlers(...)     6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))     7. └─spect::evaluate_model(...)     8. ├─riskRegression::Score(...)     9. └─riskRegression::Score.list(...)    10. └─riskRegression:::computePerformance(...)    11. ├─base::do.call(paste(m, response.type, sep = "."), input)    12. └─riskRegression:::Brier.survival(...)    13. ├─...[]    14. └─data.table:::`[.data.table`(...)      [ FAIL 1 | WARN 73 | SKIP 0 | PASS 29 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [71s/84s] ERROR Error(s) in re-building vignettes:   ... --- re-building ‘create_synthetic_data.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘create_synthetic_data.Rmd’ --- re-building ‘modeling_with_binary_classifiers.Rmd’ using rmarkdown Quitting from modeling_with_binary_classifiers.Rmd:96-100 [unnamed-chunk-9] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `[.data.table`: ! attempt access index 10/10 in VECTOR_ELT --- Backtrace:     ▆  1. └─spect::evaluate_model(result, prediction_times)  2. ├─riskRegression::Score(...)  3. └─riskRegression::Score.list(...)  4. └─riskRegression:::computePerformance(...)  5. ├─base::do.call(paste(m, response.type, sep = "."), input)  6. └─riskRegression:::Brier.survival(...)  7. ├─...[]  8. └─data.table:::`[.data.table`(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'modeling_with_binary_classifiers.Rmd' failed with diagnostics: attempt access index 10/10 in VECTOR_ELT --- failed re-building ‘modeling_with_binary_classifiers.Rmd’ --- re-building ‘training_synthetic_data.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘training_synthetic_data.Rmd’ SUMMARY: processing the following file failed:   ‘modeling_with_binary_classifiers.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [4s/6s] OK
• checking HTML version of manual ... [1s/1s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 ERRORs