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### Running command:
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###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:randRotation.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings randRotation_1.23.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.23-bioc/meat/randRotation.Rcheck’
* using R Under development (unstable) (2026-03-05 r89546)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.4 LTS
* using session charset: UTF-8
* current time: 2026-03-10 06:30:46 UTC
* checking for file ‘randRotation/DESCRIPTION’ ... OK
* this is package ‘randRotation’ version ‘1.23.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘randRotation’ can be installed ... OK
* 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 ... 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 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 ... OK
* checking Rd files ... NOTE
checkRd: (-1) qqunif.Rd:35: Lost braces; missing escapes or markup?
    35 | A list of \code{x} and {y} coordinates, as in \code{\link[stats:qqnorm]{qqplot}}.
       |                        ^
* 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 sizes of PDF files under ‘inst/doc’ ...* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
      user system elapsed
pFdr 7.243  0.344   7.589
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
  [5] 1.000 - 1.000 == 1.06e-05
  ── Failure ('test_rotateStat_pFdr.R:33:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ──
  Expected `sort(pFdr(res1, "fdr.qu"))[1:10]` to equal `c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1)`.
  Differences:
  5/10 mismatches (average diff: 0.00413)
  [1] 0.880 - 0.870 == 1.00e-02
  [2] 0.950 - 0.940 == 1.00e-02
  [3] 0.994 - 0.993 == 5.35e-04
  [4] 0.999 - 0.998 == 1.21e-04
  [5] 1.000 - 1.000 == 1.06e-05
  
  [ FAIL 3 | WARN 0 | SKIP 0 | PASS 16 ]
  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
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.23-bioc/meat/randRotation.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL randRotation
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* installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’
* installing *source* package ‘randRotation’ ...
** this is package ‘randRotation’ version ‘1.23.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (randRotation)

R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(randRotation)
> 
> test_check("randRotation")
Saving _problems/test_rotateStat_pFdr-31.R
Saving _problems/test_rotateStat_pFdr-32.R
Saving _problems/test_rotateStat_pFdr-33.R
[ FAIL 3 | WARN 0 | SKIP 0 | PASS 16 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_rotateStat_pFdr.R:31:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ──
Expected `sort(pFdr(res1))[1:10]` to equal `c(...)`.
Differences:
8/10 mismatches (average diff: 0.000412)
[1]  0.0089 - 0.0088 ==  1.00e-04
[2]  0.0096 - 0.0095 ==  9.99e-05
[3]  0.0154 - 0.0151 ==  3.00e-04
[6]  0.0270 - 0.0268 ==  2.00e-04
[7]  0.0361 - 0.0362 == -1.00e-04
[8]  0.0395 - 0.0394 ==  1.00e-04
[9]  0.0455 - 0.0457 == -2.00e-04
[10] 0.0495 - 0.0473 ==  2.20e-03
── Failure ('test_rotateStat_pFdr.R:32:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ──
Expected `sort(pFdr(res1, "fdr.q"))[1:10]` to equal `c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1)`.
Differences:
5/10 mismatches (average diff: 0.00413)
[1] 0.880 - 0.870 == 1.00e-02
[2] 0.950 - 0.940 == 1.00e-02
[3] 0.994 - 0.993 == 5.35e-04
[4] 0.999 - 0.998 == 1.21e-04
[5] 1.000 - 1.000 == 1.06e-05
── Failure ('test_rotateStat_pFdr.R:33:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ──
Expected `sort(pFdr(res1, "fdr.qu"))[1:10]` to equal `c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1)`.
Differences:
5/10 mismatches (average diff: 0.00413)
[1] 0.880 - 0.870 == 1.00e-02
[2] 0.950 - 0.940 == 1.00e-02
[3] 0.994 - 0.993 == 5.35e-04
[4] 0.999 - 0.998 == 1.21e-04
[5] 1.000 - 1.000 == 1.06e-05

[ FAIL 3 | WARN 0 | SKIP 0 | PASS 16 ]
Error:
! Test failures.
Execution halted