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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD check --install=check:randRotation.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings randRotation_1.19.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/randRotation.Rcheck’
* using R Under development (unstable) (2024-11-24 r87369)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘randRotation/DESCRIPTION’ ... OK
* this is package ‘randRotation’ version ‘1.19.0’
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
      user system elapsed
pFdr 9.649  0.383  10.054
* 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:
  [7] 1.000 - 1.000 == -1.54e-05
  ── Failure ('test_rotateStat_pFdr.R:33:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ──
  sort(pFdr(res1, "fdr.qu"))[1:10] not equal to c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1).
  7/10 mismatches (average diff: 0.133)
  [1] 0.150 - 0.870 == -7.20e-01
  [2] 0.780 - 0.940 == -1.60e-01
  [3] 0.954 - 0.993 == -3.86e-02
  [4] 0.990 - 0.998 == -8.63e-03
  [5] 1.000 - 1.000 == -4.12e-04
  [6] 1.000 - 1.000 == -2.78e-05
  [7] 1.000 - 1.000 == -1.54e-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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.21-bioc/meat/randRotation.Rcheck/00check.log’
for details.

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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL randRotation
###
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* installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library’
* installing *source* package ‘randRotation’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
Loading required namespace: randRotation
*** 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) (2024-11-24 r87369) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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")
[ 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" ──
sort(pFdr(res1))[1:10] not equal to c(...).
10/10 mismatches (average diff: 0.00273)
[1] 0.0016 - 0.0088 == -0.0072
[2] 0.0079 - 0.0095 == -0.0016
[3] 0.0170 - 0.0151 ==  0.0019
[4] 0.0192 - 0.0197 == -0.0005
[5] 0.0284 - 0.0259 ==  0.0025
[6] 0.0286 - 0.0268 ==  0.0018
[7] 0.0338 - 0.0362 == -0.0024
[8] 0.0343 - 0.0394 == -0.0051
[9] 0.0433 - 0.0457 == -0.0024
...
── Failure ('test_rotateStat_pFdr.R:32:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ──
sort(pFdr(res1, "fdr.q"))[1:10] not equal to c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1).
7/10 mismatches (average diff: 0.133)
[1] 0.150 - 0.870 == -7.20e-01
[2] 0.780 - 0.940 == -1.60e-01
[3] 0.954 - 0.993 == -3.86e-02
[4] 0.990 - 0.998 == -8.63e-03
[5] 1.000 - 1.000 == -4.12e-04
[6] 1.000 - 1.000 == -2.78e-05
[7] 1.000 - 1.000 == -1.54e-05
── Failure ('test_rotateStat_pFdr.R:33:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ──
sort(pFdr(res1, "fdr.qu"))[1:10] not equal to c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1).
7/10 mismatches (average diff: 0.133)
[1] 0.150 - 0.870 == -7.20e-01
[2] 0.780 - 0.940 == -1.60e-01
[3] 0.954 - 0.993 == -3.86e-02
[4] 0.990 - 0.998 == -8.63e-03
[5] 1.000 - 1.000 == -4.12e-04
[6] 1.000 - 1.000 == -2.78e-05
[7] 1.000 - 1.000 == -1.54e-05

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