• using R Under development (unstable) (2025-10-07 r88905)
• 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 ‘BioTIMEr/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘BioTIMEr’ version ‘0.2.5’
• 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 ‘BioTIMEr’ can be installed ... [20s/54s] OK See the install log for details.
• 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 ... [5s/17s] OK
• checking whether the package can be loaded with stated dependencies ... [5s/13s] OK
• checking whether the package can be unloaded cleanly ... [5s/14s] OK
• checking whether the namespace can be loaded with stated dependencies ... [5s/12s] OK
• checking whether the namespace can be unloaded cleanly ... [5s/16s] OK
• checking loading without being on the library search path ... [5s/14s] 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 ... [25s/55s] 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 LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [12s/31s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [50s/87s] ERROR   Running ‘testthat.R’ [49s/86s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > test_check("BioTIMEr")   Loading required package: BioTIMEr   Starting 2 test processes   [ FAIL 4 | WARN 3 | SKIP 16 | PASS 59 ]      ══ Skipped tests (16) ══════════════════════════════════════════════════════════   • On CRAN (16): 'test-metrics.R:60:3', 'test-metrics.R:80:3',     'test-metrics.R:86:3', 'test-metrics.R:92:3', 'test-metrics.R:98:3',     'test-gridding.R:52:3', 'test-gridding.R:58:3', 'test-gridding.R:64:3',     'test-scales.R:35:3', 'test-slopes.R:3:3', 'test-workflow_alpha.R:3:3',     'test-workflow_beta.R:3:3', 'test-runResampling.R:42:3',     'test-runResampling.R:81:3', 'test-runResampling.R:119:3',     'test-runResampling.R:157:3'      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-metrics.R:52:3'): getAlpha computes accurate biodiversity metrics ──   result$Shannon (`actual`) not equal to `shannon_expected` (`expected`).      `names(actual)` is absent   `names(expected)` is a character vector ('1', '2', '3', '4', '5', ...)   ── Failure ('test-metrics.R:53:3'): getAlpha computes accurate biodiversity metrics ──   result$expShannon (`actual`) not equal to exp(shannon_expected) (`expected`).      `names(actual)` is absent   `names(expected)` is a character vector ('1', '2', '3', '4', '5', ...)   ── Failure ('test-metrics.R:54:3'): getAlpha computes accurate biodiversity metrics ──   result$Simpson (`actual`) not equal to `simpson_expected` (`expected`).      `names(actual)` is absent   `names(expected)` is a character vector ('1', '2', '3', '4', '5', ...)   ── Failure ('test-metrics.R:55:3'): getAlpha computes accurate biodiversity metrics ──   result$invSimpson (`actual`) not equal to `inv_expected` (`expected`).      `names(actual)` is absent   `names(expected)` is a character vector ('1', '2', '3', '4', '5', ...)      [ FAIL 4 | WARN 3 | SKIP 16 | PASS 59 ]   Deleting unused snapshots:   • scales/color-continuous-cool-false.svg   • scales/color-continuous-cool-true.svg   • scales/color-continuous-gradient-false.svg   • scales/color-continuous-gradient-true.svg   • scales/color-continuous-realms-false.svg   • scales/color-continuous-realms-true.svg   • scales/color-continuous-warm-false.svg   • scales/color-continuous-warm-true.svg   • scales/color-cool-false-false.svg   • scales/color-cool-false-true.svg   • scales/color-cool-true-false.svg   • scales/color-cool-true-true.svg   • scales/color-gradient-false-false.svg   • scales/color-gradient-false-true.svg   • scales/color-gradient-true-false.svg   • scales/color-gradient-true-true.svg   • scales/color-realms-false-false.svg   • scales/color-realms-false-true.svg   • scales/color-realms-true-false.svg   • scales/color-realms-true-true.svg   • scales/color-warm-false-false.svg   • scales/color-warm-false-true.svg   • scales/color-warm-true-false.svg   • scales/color-warm-true-true.svg   • scales/fill-continuous-cool-false.svg   • scales/fill-continuous-cool-true.svg   • scales/fill-continuous-gradient-false.svg   • scales/fill-continuous-gradient-true.svg   • scales/fill-continuous-realms-false.svg   • scales/fill-continuous-realms-true.svg   • scales/fill-continuous-warm-false.svg   • scales/fill-continuous-warm-true.svg   • scales/fill-cool-false-false.svg   • scales/fill-cool-false-true.svg   • scales/fill-cool-true-false.svg   • scales/fill-cool-true-true.svg   • scales/fill-gradient-false-false.svg   • scales/fill-gradient-false-true.svg   • scales/fill-gradient-true-false.svg   • scales/fill-gradient-true-true.svg   • scales/fill-realms-false-false.svg   • scales/fill-realms-false-true.svg   • scales/fill-realms-true-false.svg   • scales/fill-realms-true-true.svg   • scales/fill-warm-false-false.svg   • scales/fill-warm-false-true.svg   • scales/fill-warm-true-false.svg   • scales/fill-warm-true-true.svg   Error: Test failures   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [6m/17m] OK
• checking PDF version of manual ... [7s/21s] OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 ERROR