##############################################################################
##############################################################################
###
### Running command:
###
###   /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_1.18.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/randRotation.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    gcc (GCC) 12.2.1 20220819 (openEuler 12.2.1-14)
    GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘randRotation/DESCRIPTION’ ... OK
* this is package ‘randRotation’ version ‘1.18.0’
* 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 9.572  0.292   9.883
* 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-3.20-bioc/meat/randRotation.Rcheck/00check.log’
for details.