• using R Under development (unstable) (2026-07-21 r90286 ucrt)
• using platform: x86_64-w64-mingw32
• R was compiled by     gcc.exe (GCC) 14.3.0     GNU Fortran (GCC) 14.3.0
• running under: Windows Server 2022 x64 (build 20348)
• using session charset: UTF-8 * current time: 2026-07-22 16:03:21 UTC
• checking for file 'ulrb/DESCRIPTION' ... OK
• checking extension type ... Package
• this is package 'ulrb' version '0.1.8'
• 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 hidden files and directories ... OK
• checking for portable file names ... OK
• checking whether package 'ulrb' can be installed ... OK See the install log for details.
• checking installed package size ... OK
• 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 ... [1s] OK
• checking whether the package can be loaded with stated dependencies ... [1s] OK
• checking whether the package can be unloaded cleanly ... [1s] OK
• checking whether the namespace can be loaded with stated dependencies ... [1s] OK
• checking whether the namespace can be unloaded cleanly ... [1s] OK
• checking loading without being on the library search path ... [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 ... [4s] OK
• checking Rd files ... [1s] 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 ... [1s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking R/sysdata.rda ... OK
• checking installed files from 'inst/doc' ... OK
• checking files in 'vignettes' ... OK
• checking examples ... [10s] OK
• checking for unstated dependencies in 'tests' ... OK
• checking tests ... [123s] ERROR   Running 'testthat.R' [122s] 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/tests.html   > # * https://testthat.r-lib.org/reference/test_package.html#special-files   >   > library(testthat)   > library(ulrb)   >   > test_check("ulrb")   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   If half the observations within a classification are below 0.5 Silhouette score, we consider that the clustering was 'Bad'.   Check 'Evaluation' collumn for more details.   Joining with `by = join_by(Sample, Level)`   If half the observations within a classification are below 0.5 Silhouette score, we consider that the clustering was 'Bad'.   Check 'Evaluation' collumn for more details.   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Automatic option set to TRUE, so classification vector was overwritten   K= 2 based on Average Silhouette Score.   Joining with `by = join_by(Sample, Level)`   Automatic option set to TRUE, so classification vector was overwritten   K= 9 based on Calinski-Harabasz.   Joining with `by = join_by(Sample, Level)`   Automatic option set to TRUE, so classification vector was overwritten   K= 9 based on Calinski-Harabasz.   Joining with `by = join_by(Sample, Level)`   Automatic option set to TRUE, so classification vector was overwritten   K= 5 based on Average Silhouette Score.   Joining with `by = join_by(Sample, Level)`   Automatic option set to TRUE, so classification vector was overwritten   Joining with `by = join_by(Sample, Level)`   Saving _problems/test-define_rb-264.R   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Ignoring unknown labels:   * fill : ""   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Joining with `by = join_by(Sample, Level)`   Missing argument sample_names. This is a vector with the names of the samples, as in the data input   Taxa_id assumes each column is a taxonomic unit.   Taxa_id assumes each column is a taxonomic unit.   [ FAIL 1 | WARN 235 | SKIP 0 | PASS 153 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-define_rb.R:263:3'): No warning, if there are no clusters with zero taxa ──   Expected `define_rb(no_singles, check_singles = TRUE)` not to throw any warnings.   Actually got a <rlang_warning> with message:     There were 4 warnings in `mutate()`.     The first warning was:     i In argument: `pam_object = purrr::map(...)`.     i In group 1: `Sample = "ERR2044665"`.     Caused by warning in `structure()`:     ! Replacing special names '.Names' is deprecated; use 'names' instead.     i Run `dplyr::last_dplyr_warnings()` to see the 3 remaining warnings.      [ FAIL 1 | WARN 235 | SKIP 0 | PASS 153 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [175s] OK
• checking PDF version of manual ... [20s] OK
• checking HTML version of manual ... [2s] OK
• DONE

Status: 1 ERROR