* using log directory ‘/data/localhost/ripley/R/packages/tests-MKL/ivdtools.Rcheck’ * using R Under development (unstable) (2026-08-21 r90440) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2) GNU Fortran (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2) * running under: Fedora Linux 44 (Server Edition) * using session charset: UTF-8 * current time: 2026-08-22 14:42:16 UTC * using option ‘--no-stop-on-test-error’ * checking for file ‘ivdtools/DESCRIPTION’ ... OK * this is package ‘ivdtools’ version ‘0.1.2’ * 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 ‘ivdtools’ can be installed ... [17s/22s] 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 ... 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 ... [32s/37s] 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 installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [32s/36s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ [21s/22s] [22s/22s] ERROR Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(ivdtools) Attaching package: 'ivdtools' The following object is masked from 'package:testthat': describe The following object is masked from 'package:stats': profile The following object is masked from 'package:base': kappa > > test_check("ivdtools") Correlation Method: pearson r = 0.9999, 95% CI [0.9995, 1.0000] p-value: < 2.2e-16 n = 12 Regression Method: OLS Intercept = -0.1079 (SE = 0.1590) Slope = 1.0036 (SE = 0.0052) Intercept 95% CI: [-0.4622, 0.2463] Slope 95% CI: [0.9920, 1.0152] H0: slope = 1 -> t = 0.6864, p = 0.5081 slope not significantly different from 1 (CI contains 1) R-squared = 0.9997 Sigma = 0.2248 n = 12 Bland-Altman Type: difference Y-axis: candidate - reference X-axis: Mean of candidate and reference n = 12 Mean diff: 0.0083 SD diff: 0.2193 95% LoA: [-0.4215, 0.4382] 95% CI for LoA: Lower LoA: [-0.6667, -0.1764] Upper LoA: [0.1930, 0.6834] AUC Table Column AUC 95% CI Direction ------------------------------------------------------------ marker 1.0000 [ NA, NA] geq Saving _problems/test-sensitivity-27.R Saving _problems/test-sensitivity-32.R Saving _problems/test-sensitivity-34.R Saving _problems/test-sensitivity-110.R [ FAIL 4 | WARN 0 | SKIP 0 | PASS 330 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-sensitivity.R:27:3'): full pipeline: LoB / LoD / LoQ match EP17-A2 and analytic values ── Expected `as.numeric(object)` to equal `as.numeric(expected)`. Differences: `actual`: 0.219 `expected`: 0.198 Backtrace: ▆ 1. └─ivdtools:::expect_num_equal(res$lod, lod_ana, tolerance = 1e-06) at test-sensitivity.R:27:3 2. └─testthat::expect_equal(...) at ./helper-testing.R:8:3 ── Failure ('test-sensitivity.R:32:3'): full pipeline: LoB / LoD / LoQ match EP17-A2 and analytic values ── Expected `as.numeric(object)` to equal `as.numeric(expected)`. Differences: `actual`: 0.5086 `expected`: 0.5000 Backtrace: ▆ 1. └─ivdtools:::expect_num_equal(res$loq, 0.5, tolerance = 0.001) at test-sensitivity.R:32:3 2. └─testthat::expect_equal(...) at ./helper-testing.R:8:3 ── Failure ('test-sensitivity.R:34:3'): full pipeline: LoB / LoD / LoQ match EP17-A2 and analytic values ── Expected `res$model` to equal "Model_4". Differences: `actual`: "Model_7" `expected`: "Model_4" ── Failure ('test-sensitivity.R:110:3'): no-blank data returns only LoQ ──────── Expected `as.numeric(object)` to equal `as.numeric(expected)`. Differences: `actual`: 0.5086 `expected`: 0.5000 Backtrace: ▆ 1. └─ivdtools:::expect_num_equal(res$loq, 0.5, tolerance = 0.001) at test-sensitivity.R:110:3 2. └─testthat::expect_equal(...) at ./helper-testing.R:8:3 [ FAIL 4 | WARN 0 | SKIP 0 | PASS 330 ] Error: ! Test failures. Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... 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 See ‘/data/localhost/ripley/R/packages/tests-MKL/ivdtools.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 3:27.82, 159.64 + 11.12