• using R Under development (unstable) (2025-05-13 r88200)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     Debian clang version 19.1.7 (3)     Debian flang-new version 19.1.7 (3)
• running under: Debian GNU/Linux trixie/sid
• using session charset: UTF-8
• checking for file ‘viraldomain/DESCRIPTION’ ... OK
• this is package ‘viraldomain’ version ‘0.0.6’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [1s/2s] OK
• checking package namespace information ... OK
• checking package dependencies ... INFO Package suggested but not available for checking: ‘kknn’
• 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 ‘viraldomain’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... OK
• checking DESCRIPTION meta-information ... NOTE   Missing dependency on R >= 4.1.0 because package code uses the pipe   |> or function shorthand \(...) syntax added in R 4.1.0.   File(s) using such syntax:     ‘knn_domain_score.R’ ‘knn_domain_score.Rd’ ‘mars_domain_score.R’     ‘mars_domain_score.Rd’ ‘nn_domain_score.R’ ‘nn_domain_score.Rd’     ‘normalized_domain_plot.R’ ‘normalized_domain_plot.Rd’     ‘rf_domain_score.R’ ‘simple_domain_plot.R’ ‘simple_domain_plot.Rd’
• 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 ... [0s/0s] OK
• checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
• checking whether the package can be unloaded cleanly ... [0s/0s] OK
• checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
• checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
• checking loading without being on the library search path ... [0s/0s] 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 ... [3s/5s] 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 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 examples ... [1s/2s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [8s/10s] ERROR   Running ‘testthat.R’ [7s/9s] 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(viraldomain)   >   > test_check("viraldomain")      Attaching package: 'dplyr'      The following object is masked from 'package:testthat':          matches      The following objects are masked from 'package:stats':          filter, lag      The following objects are masked from 'package:base':          intersect, setdiff, setequal, union      [ FAIL 1 | WARN 0 | SKIP 5 | PASS 0 ]      ══ Skipped tests (5) ═══════════════════════════════════════════════════════════   • On CRAN (5): 'test-mars_domain_score.R:11:3', 'test-nn_domain_score.R:11:3',     'test-normalized_domain_plot.R:11:3', 'test-rf_domain_score.R:11:3',     'test-simple_domain_plot.R:11:3'      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-knn_domain_score.R:11:3'): `knn_domain_score()` works ──────────   Error in `fit_xy(spec, x = mold$predictors, y = mold$outcomes, case_weights = case_weights,       control = control_parsnip)`: Please install the kknn package to use this engine.   Backtrace:        ▆     1. ├─base::print(...)     2. └─viraldomain::knn_domain_score(...)     3. ├─dplyr::bind_cols(...)     4. │ └─rlang::list2(...)     5. ├─stats::predict(...)     6. ├─parsnip::fit(...)     7. └─workflows:::fit.workflow(...)     8. └─workflows::.fit_model(workflow, control)     9. ├─generics::fit(action_model, workflow = workflow, control = control)    10. └─workflows:::fit.action_model(...)    11. └─workflows:::fit_from_xy(spec, mold, case_weights, control_parsnip)    12. ├─generics::fit_xy(...)    13. └─parsnip::fit_xy.model_spec(...)    14. └─parsnip:::check_installs(object)    15. └─cli::cli_abort(...)    16. └─rlang::abort(...)      [ FAIL 1 | WARN 0 | SKIP 5 | PASS 0 ]   Error: Test failures   Execution halted
• checking PDF version of manual ... [4s/5s] OK
• checking HTML version of manual ... [0s/1s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 ERROR, 1 NOTE