##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:BloodGen3Module.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings BloodGen3Module_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/BloodGen3Module.Rcheck’
* using R version 4.4.0 Patched (2024-04-24 r86482)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.4
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BloodGen3Module/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BloodGen3Module’ version ‘1.13.0’
* 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 ‘BloodGen3Module’ can be installed ... WARNING
Found the following significant warnings:
  Warning: replacing previous import ‘SummarizedExperiment::rowRanges’ by ‘matrixStats::rowRanges’ when loading ‘BloodGen3Module’
  Warning: replacing previous import ‘SummarizedExperiment::start’ by ‘stats::start’ when loading ‘BloodGen3Module’
  Warning: replacing previous import ‘SummarizedExperiment::end’ by ‘stats::end’ when loading ‘BloodGen3Module’
  Warning: replacing previous import ‘matrixStats::rowRanges’ by ‘SummarizedExperiment::rowRanges’ when loading ‘BloodGen3Module’
See ‘/Users/biocbuild/bbs-3.20-bioc/meat/BloodGen3Module.Rcheck/00install.out’ for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* 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 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 ... OK
* 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 R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                       user system elapsed
Groupcomparison      28.769  3.246  53.457
gridplot             25.925  1.187  37.716
fingerprintplot      13.946  0.731  20.450
Individualcomparison 12.002  0.785  17.861
Groupcomparisonlimma 11.851  0.649  17.790
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘test-fold_change.R’
 OK
* 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 WARNING, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/BloodGen3Module.Rcheck/00check.log’
for details.