Back to Multiple platform build/check report for BioC 3.14
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2022-01-19 13:06:17 -0500 (Wed, 19 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4328
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4077
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4138
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for blacksheepr on tokay2


To the developers/maintainers of the blacksheepr package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/blacksheepr.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 201/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
blacksheepr 1.8.0  (landing page)
RugglesLab
Snapshot Date: 2022-01-18 01:55:07 -0500 (Tue, 18 Jan 2022)
git_url: https://git.bioconductor.org/packages/blacksheepr
git_branch: RELEASE_3_14
git_last_commit: a785f7f
git_last_commit_date: 2021-10-26 12:55:06 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: blacksheepr
Version: 1.8.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:blacksheepr.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings blacksheepr_1.8.0.tar.gz
StartedAt: 2022-01-18 16:25:19 -0500 (Tue, 18 Jan 2022)
EndedAt: 2022-01-18 16:30:55 -0500 (Tue, 18 Jan 2022)
EllapsedTime: 336.2 seconds
RetCode: 0
Status:   OK  
CheckDir: blacksheepr.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:blacksheepr.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings blacksheepr_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/blacksheepr.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'blacksheepr/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'blacksheepr' version '1.8.0'
* 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 'blacksheepr' 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
deva             7.84   0.23    8.08
create_heatmap   6.62   0.24    6.86
outlier_analysis 5.09   0.06    5.15
outlier_heatmap  5.05   0.09    5.14
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
deva           8.15   0.13    8.28
create_heatmap 6.14   0.15    6.30
deva_results   5.21   0.08    5.28
* 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


Installation output

blacksheepr.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/blacksheepr_1.8.0.tar.gz && rm -rf blacksheepr.buildbin-libdir && mkdir blacksheepr.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=blacksheepr.buildbin-libdir blacksheepr_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL blacksheepr_1.8.0.zip && rm blacksheepr_1.8.0.tar.gz blacksheepr_1.8.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
 40 3773k   40 1543k    0     0  3743k      0  0:00:01 --:--:--  0:00:01 3746k
100 3773k  100 3773k    0     0  5044k      0 --:--:-- --:--:-- --:--:-- 5044k

install for i386

* installing *source* package 'blacksheepr' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'blacksheepr'
    finding HTML links ... done
    annotationlist_builder                  html  
    comparison_groupings                    html  
    count_outliers                          html  
    create_heatmap                          html  
    deva                                    html  
    deva_normalization                      html  
    deva_results                            html  
    make_comparison_columns                 html  
    make_outlier_table                      html  
    outlier_analysis                        html  
    outlier_heatmap                         html  
    sample_annotationdata                   html  
    sample_phosphodata                      html  
    sample_rnadata                          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 'blacksheepr' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'blacksheepr' as blacksheepr_1.8.0.zip
* DONE (blacksheepr)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'blacksheepr' successfully unpacked and MD5 sums checked

Tests output

blacksheepr.Rcheck/tests_i386/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
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(blacksheepr)
> 
> test_check("blacksheepr")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
> 
> proc.time()
   user  system elapsed 
  31.40    1.53   32.92 

blacksheepr.Rcheck/tests_x64/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
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(blacksheepr)
> 
> test_check("blacksheepr")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
> 
> proc.time()
   user  system elapsed 
  27.26    0.65   27.90 

Example timings

blacksheepr.Rcheck/examples_i386/blacksheepr-Ex.timings

nameusersystemelapsed
annotationlist_builder0.010.000.01
comparison_groupings0.050.000.05
count_outliers3.320.393.70
create_heatmap6.620.246.86
deva7.840.238.08
deva_normalization0.050.020.06
deva_results4.360.094.45
make_comparison_columns0.020.000.02
make_outlier_table1.950.052.00
outlier_analysis5.090.065.15
outlier_heatmap5.050.095.14

blacksheepr.Rcheck/examples_x64/blacksheepr-Ex.timings

nameusersystemelapsed
annotationlist_builder000
comparison_groupings0.020.000.01
count_outliers4.240.114.34
create_heatmap6.140.156.30
deva8.150.138.28
deva_normalization0.060.010.08
deva_results5.210.085.28
make_comparison_columns0.000.020.02
make_outlier_table2.110.012.12
outlier_analysis4.680.044.72
outlier_heatmap4.720.044.76