##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:fcoex.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings fcoex_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.11-bioc/meat/fcoex.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘fcoex/DESCRIPTION’ ... OK
* this is package ‘fcoex’ version ‘1.2.0’
* 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 ‘fcoex’ 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 ... WARNING
Documented arguments not in \usage in documentation object '.plot_one_interaction':
  ‘...’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* 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
find_cbf_modules 21.795  0.104  21.909
get_nets         19.839  0.020  19.859
* 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: 1 WARNING
See
  ‘/home/biocbuild/bbs-3.11-bioc/meat/fcoex.Rcheck/00check.log’
for details.

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL fcoex
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’
* installing *source* package ‘fcoex’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB

** byte-compile and prepare package for lazy loading
** help
*** 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 (fcoex)

R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 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(fcoex)

> 
> test_check("fcoex")
[1] "Number of prospective features =  99"
Round 1 
[1] "first_prime  round ( |s_prime| = 99 )"
   0.03740884   0.03561466   Removed feature  194 
   0.09154728   0.03075492   Removed feature  85 
   0.08555099   0.02800735   Removed feature  131 
   0.05560979   0.02414231   Removed feature  122 
   0.02464403   0.02358608   Removed feature  96 
   0.02642214   0.02103363   Removed feature  71 
   0.03476916   0.01964875   Removed feature  8 
   0.03833449   0.01790847   Removed feature  9 
   0.02866871   0.01488066   Removed feature  158 
   0.06122103   0.01453744   Removed feature  80 
   0.04065972   0.01258914   Removed feature  113 
   0.05022302   0.01224877   Removed feature  129 
   0.01535332   0.01224877   Removed feature  177 
   0.02642214   0.01067603   Removed feature  165 
   0.03096357   0.009981355   Removed feature  69 
   0.05103884   0.009373247   Removed feature  182 
   0.01208551   0.009373247   Removed feature  197 
   0.04193089   0.008943111   Removed feature  79 
   0.03058258   0.00821823   Removed feature  33 
   0.008642389   0.007950507   Removed feature  18 
   0.01047948   0.007676308   Removed feature  134 
   0.05193766   0.007429651   Removed feature  107 
   0.01949123   0.007429651   Removed feature  188 
   0.007130495   0.006587856   Removed feature  77 
   0.006860312   0.006362556   Removed feature  76 
   0.006860312   0.006362556   Removed feature  118 
   0.01195138   0.006362556   Removed feature  130 
   0.01231224   0.006187113   Removed feature  52 
   0.03311042   0.00564683   Removed feature  132 
   0.02675612   0.005575571   Removed feature  175 
   0.005368735   0.00488621   Removed feature  90 
   0.01791762   0.004506593   Removed feature  91 
   0.03453559   0.004506593   Removed feature  103 
   0.008485055   0.004391526   Removed feature  55 
   0.008485055   0.004391526   Removed feature  174 
   0.008420069   0.004132786   Removed feature  144 
   0.01977326   0.003830409   Removed feature  73 
   0.02642214   0.003830409   Removed feature  169 
Round 2 
[1] "first_prime  round ( |s_prime| = 61 )"
   0.0369118   0.02800735   Removed feature  179 
   0.06134609   0.01964875   Removed feature  150 
   0.04247725   0.01561266   Removed feature  61 
   0.05937515   0.01488066   Removed feature  126 
   0.02708454   0.01488066   Removed feature  139 
   0.03017533   0.01067603   Removed feature  22 
   0.06134609   0.009981355   Removed feature  156 
   0.03116066   0.008943111   Removed feature  12 
   0.02110472   0.008543364   Removed feature  3 
   0.03502467   0.007429651   Removed feature  117 
   0.04846656   0.007261307   Removed feature  39 
   0.01375183   0.006187113   Removed feature  178 
   0.0195474   0.005581295   Removed feature  43 
   0.02150074   0.004975612   Removed feature  89 
   0.04616065   0.004975612   Removed feature  198 
   0.0053376   0.004506593   Removed feature  16 
   0.02746402   0.004391526   Removed feature  66 
   0.02916532   0.004391526   Removed feature  97 
   0.02916532   0.004391526   Removed feature  114 
   0.02916532   0.004391526   Removed feature  185 
   0.007494072   0.004132786   Removed feature  14 
   0.007494072   0.004132786   Removed feature  88 
Round 3 
[1] "first_prime  round ( |s_prime| = 39 )"
   0.03368656   0.02094474   Removed feature  62 
   0.05147666   0.01505173   Removed feature  147 
   0.03350382   0.01488066   Removed feature  41 
   0.01971881   0.01396718   Removed feature  200 
   0.02600396   0.01224877   Removed feature  170 
   0.03861445   0.01207179   Removed feature  26 
   0.01317553   0.01152678   Removed feature  72 
   0.02030074   0.009373247   Removed feature  133 
   0.01656703   0.004506593   Removed feature  57 
   0.03670163   0.004391526   Removed feature  23 
Round 4 
[1] "first_prime  round ( |s_prime| = 29 )"
   0.04172105   0.03705068   Removed feature  121 
   0.02088483   0.01851095   Removed feature  119 
   0.02775753   0.01786321   Removed feature  124 
   0.06793444   0.01067603   Removed feature  167 
Round 5 
[1] "first_prime  round ( |s_prime| = 25 )"
   0.03626831   0.03075492   Removed feature  46 
   0.0228914   0.02103363   Removed feature  102 
   0.03461312   0.01561266   Removed feature  10 
   0.0301355   0.01224877   Removed feature  162 
   0.03442195   0.009981355   Removed feature  19 
   0.01101662   0.007676308   Removed feature  106 
Round 6 
[1] "first_prime  round ( |s_prime| = 19 )"
   0.06819707   0.02414231   Removed feature  105 
   0.05316746   0.009981355   Removed feature  190 
Round 7 
[1] "first_prime  round ( |s_prime| = 17 )"
Round 8 
[1] "first_prime  round ( |s_prime| = 17 )"
   0.08605282   0.01786321   Removed feature  110 
Round 9 
[1] "first_prime  round ( |s_prime| = 16 )"
   0.03417439   0.02485001   Removed feature  159 
Round 10 
[1] "first_prime  round ( |s_prime| = 15 )"
   0.05839991   0.01757082   Removed feature  17 
   0.02488141   0.01679217   Removed feature  183 
Round 11 
[1] "first_prime  round ( |s_prime| = 13 )"
   0.04278525   0.01396718   Removed feature  151 
Round 12 
[1] "first_prime  round ( |s_prime| = 12 )"
══ testthat results  ═══════════════════════════════════════════════════════════
[ OK: 3 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
> 
> 
> proc.time()
   user  system elapsed 
 18.241   0.320  18.547