##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:DeconvoBuddies.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings DeconvoBuddies_1.3.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.23-bioc/meat/DeconvoBuddies.Rcheck’
* using R Under development (unstable) (2025-10-20 r88955)
* 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 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘DeconvoBuddies/DESCRIPTION’ ... OK
* this is package ‘DeconvoBuddies’ version ‘1.3.0’
* 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 ‘DeconvoBuddies’ 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 ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
plot_marker_express_ALL  23.907  1.169  25.291
plot_gene_express         9.827  0.791  10.894
findMarkers_1vAll         9.385  0.714  10.313
fetch_deconvo_data        5.610  0.727   6.874
plot_marker_express_List  4.995  1.068   6.326
plot_marker_express       5.210  0.639   6.078
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* 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: OK

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL DeconvoBuddies
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’
* installing *source* package ‘DeconvoBuddies’ ...
** this is package ‘DeconvoBuddies’ version ‘1.3.0’
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (DeconvoBuddies)

R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences"
Copyright (C) 2025 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(DeconvoBuddies)
> 
> test_check("DeconvoBuddies")
2025-10-31 22:43:57.520566 Access ExperimentHub EH9626
see ?DeconvoBuddies and browseVignettes('DeconvoBuddies') for documentation
loading from cache
2025-10-31 22:44:06.958873 Access ExperimentHub EH9626
see ?DeconvoBuddies and browseVignettes('DeconvoBuddies') for documentation
loading from cache
2025-10-31 22:44:13.387764 Access ExperimentHub EH9626
see ?DeconvoBuddies and browseVignettes('DeconvoBuddies') for documentation
loading from cache
2025-10-31 22:44:16.020236 Access ExperimentHub EH9626
see ?DeconvoBuddies and browseVignettes('DeconvoBuddies') for documentation
loading from cache
2025-10-31 22:44:19.752793 Access ExperimentHub EH9626
see ?DeconvoBuddies and browseVignettes('DeconvoBuddies') for documentation
loading from cache
[ FAIL 0 | WARN 3 | SKIP 0 | PASS 33 ]

[ FAIL 0 | WARN 3 | SKIP 0 | PASS 33 ]
> 
> proc.time()
   user  system elapsed 
 45.302   2.728  49.559