Multiple platform build/check report for BioC 3.13 - CHECK results for ceRNAnetsim on tokay2

Package: ceRNAnetsim

Version: 1.4.0

Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ceRNAnetsim.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ceRNAnetsim_1.4.0.tar.gz

StartedAt: 2021-10-14 20:52:23 -0400 (Thu, 14 Oct 2021)

EndedAt: 2021-10-14 20:55:34 -0400 (Thu, 14 Oct 2021)

EllapsedTime: 190.9 seconds

RetCode: 0

Status: OK

CheckDir: ceRNAnetsim.Rcheck

Warnings: 0

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### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ceRNAnetsim.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ceRNAnetsim_1.4.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/ceRNAnetsim.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ceRNAnetsim/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ceRNAnetsim' version '1.4.0'
* 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 whether package 'ceRNAnetsim' 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                       user system elapsed
find_node_perturbation 9.28   0.04    9.31
simulate_vis           5.09   0.01    5.11
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                        user system elapsed
find_node_perturbation 10.53   0.01   10.55
simulate_vis            5.73   0.03    5.76
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  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:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/ceRNAnetsim_1.4.0.tar.gz && rm -rf ceRNAnetsim.buildbin-libdir && mkdir ceRNAnetsim.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ceRNAnetsim.buildbin-libdir ceRNAnetsim_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL ceRNAnetsim_1.4.0.zip && rm ceRNAnetsim_1.4.0.tar.gz ceRNAnetsim_1.4.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
 49 2225k   49 1111k    0     0  1558k      0  0:00:01 --:--:--  0:00:01 1558k
100 2225k  100 2225k    0     0  1895k      0  0:00:01  0:00:01 --:--:-- 1897k

install for i386

* installing *source* package 'ceRNAnetsim' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'ceRNAnetsim'
    finding HTML links ... done
    TCGA_E9_A1N5_mirnanormal                html  
    TCGA_E9_A1N5_mirnatumor                 html  
    TCGA_E9_A1N5_normal                     html  
    TCGA_E9_A1N5_tumor                      html  
    calc_perturbation                       html  
    find_iteration                          html  
    find_node_perturbation                  html  
    gene_knockdown                          html  
    huge_example                            html  
    midsamp                                 html  
    midsamp_new_counts                      html  
    minsamp                                 html  
    mirtarbasegene                          html  
    new_counts                              html  
    normalize                               html  
    prepare_rhs                             html  
    prepare_rhs_once                        html  
    priming_graph                           html  
    simulate                                html  
    simulate_vis                            html  
    update_how                              html  
    update_nodes                            html  
    update_variables                        html  
    vis_graph                               html  
** 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

install for x64

* installing *source* package 'ceRNAnetsim' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ceRNAnetsim' as ceRNAnetsim_1.4.0.zip
* DONE (ceRNAnetsim)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'ceRNAnetsim' successfully unpacked and MD5 sums checked


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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(ceRNAnetsim)
Loading required package: dplyr

Attaching package: 'dplyr'

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

    matches

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

Loading required package: tidygraph

Attaching package: 'tidygraph'

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

    matches

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

    filter


Attaching package: 'ceRNAnetsim'

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

    simulate

> 
> 
> test_check("ceRNAnetsim")
[ FAIL 0 | WARN 35 | SKIP 0 | PASS 30 ]
> 
> proc.time()
   user  system elapsed 
  22.67    0.32   22.98


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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(ceRNAnetsim)
Loading required package: dplyr

Attaching package: 'dplyr'

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

    matches

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

Loading required package: tidygraph

Attaching package: 'tidygraph'

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

    matches

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

    filter


Attaching package: 'ceRNAnetsim'

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

    simulate

> 
> 
> test_check("ceRNAnetsim")
[ FAIL 0 | WARN 35 | SKIP 0 | PASS 30 ]
> 
> proc.time()
   user  system elapsed 
  34.71    0.23   34.93

name	user	system	elapsed
calc_perturbation	1.37	0.01	1.39
find_iteration	1.21	0.00	1.21
find_node_perturbation	9.28	0.04	9.31
priming_graph	0.41	0.00	0.41
simulate	0.86	0.00	0.86
simulate_vis	5.09	0.01	5.11
update_how	0.75	0.00	0.75
update_nodes	0.24	0.00	0.24
update_variables	0.25	0.00	0.25
vis_graph	0.95	0.00	0.95

name	user	system	elapsed
calc_perturbation	1.68	0.00	1.67
find_iteration	1.37	0.00	1.38
find_node_perturbation	10.53	0.01	10.55
priming_graph	0.45	0.00	0.45
simulate	0.91	0.02	0.93
simulate_vis	5.73	0.03	5.76
update_how	0.80	0.02	0.81
update_nodes	0.25	0.01	0.27
update_variables	0.31	0.00	0.31
vis_graph	1.08	0.00	1.08

CHECK results for ceRNAnetsim on tokay2

Summary

Command output

Installation output

Tests output

Example timings