##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:proActiv.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings proActiv_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/proActiv.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘proActiv/DESCRIPTION’ ... OK
* this is package ‘proActiv’ version ‘1.0.0’
* 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 ‘proActiv’ 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 R 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
plotPromoters 11.488  0.136  11.815
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL proActiv
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘proActiv’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (proActiv)

R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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(proActiv)

Attaching package: 'proActiv'

The following object is masked from 'package:stats':

    filter

> 
> test_check("proActiv")
$chr1
GeneRegionTrack 'chr1'
| genome: NA
| active chromosome: chr1
| annotation features: 234

$A549
DataTrack 'A549'
| genome: NA
| active chromosome: chr1
| positions: 5
| samples:1
| strand: - 

$HepG2
DataTrack 'HepG2'
| genome: NA
| active chromosome: chr1
| positions: 5
| samples:1
| strand: - 

[[4]]
AnnotationTrack ''
| genome: NA
| active chromosome: chr1
| annotation features: 5

$Axis
Genome axis 'Axis'

$titles
An object of class "ImageMap"
Slot "coords":
      x1       y1       x2       y2
chr1   6  62.4000 45.49369 287.7093
A549   6 287.7093 45.49369 374.3667
HepG2  6 374.3667 45.49369 461.0241
NA     6 461.0241 45.49369 530.3500
Axis   6 530.3500 45.49369 570.0000

Slot "tags":
$title
   chr1    A549   HepG2      NA    Axis 
 "chr1"  "A549" "HepG2"    "NA"  "Axis" 



$chr1
GeneRegionTrack 'chr1'
| genome: NA
| active chromosome: chr1
| annotation features: 234

$A549
DataTrack 'A549'
| genome: NA
| active chromosome: chr1
| positions: 5
| samples:1
| strand: - 

$HepG2
DataTrack 'HepG2'
| genome: NA
| active chromosome: chr1
| positions: 5
| samples:1
| strand: - 

[[4]]
AnnotationTrack ''
| genome: NA
| active chromosome: chr1
| annotation features: 5

$Axis
Genome axis 'Axis'

$titles
An object of class "ImageMap"
Slot "coords":
      x1       y1       x2       y2
chr1   6  62.4000 45.49369 287.7093
A549   6 287.7093 45.49369 374.3667
HepG2  6 374.3667 45.49369 461.0241
NA     6 461.0241 45.49369 530.3500
Axis   6 530.3500 45.49369 570.0000

Slot "tags":
$title
   chr1    A549   HepG2      NA    Axis 
 "chr1"  "A549" "HepG2"    "NA"  "Axis" 



══ Skipped tests ═══════════════════════════════════════════════════════════════
• Skipping on CRAN (2)

[ FAIL 0 | WARN 0 | SKIP 2 | PASS 31 ]
> 
> proc.time()
   user  system elapsed 
121.264   2.376 125.461