Back to Multiple platform build/check report for BioC 3.14
ABCDEF[G]HIJKLMNOPQRSTUVWXYZ

This page was generated on 2021-07-24 12:05:57 -0400 (Sat, 24 Jul 2021).

CHECK results for GSEABenchmarkeR on riesling1

To the developers/maintainers of the GSEABenchmarkeR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GSEABenchmarkeR.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 805/2008HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GSEABenchmarkeR 1.13.5  (landing page)
Ludwig Geistlinger
Snapshot Date: 2021-07-23 14:50:08 -0400 (Fri, 23 Jul 2021)
URL: https://git.bioconductor.org/packages/GSEABenchmarkeR
Branch: master
Last Commit: 911c64d
Last Changed Date: 2021-07-16 17:18:59 -0400 (Fri, 16 Jul 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  NO, package depends on 'EnrichmentBrowser' which is not available
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: GSEABenchmarkeR
Version: 1.13.5
Command: D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GSEABenchmarkeR.install-out.txt --library=D:\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings GSEABenchmarkeR_1.13.5.tar.gz
StartedAt: 2021-07-24 00:40:11 -0400 (Sat, 24 Jul 2021)
EndedAt: 2021-07-24 00:46:21 -0400 (Sat, 24 Jul 2021)
EllapsedTime: 370.0 seconds
RetCode: 0
Status:   OK  
CheckDir: GSEABenchmarkeR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GSEABenchmarkeR.install-out.txt --library=D:\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings GSEABenchmarkeR_1.13.5.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.14-bioc/meat/GSEABenchmarkeR.Rcheck'
* using R version 4.1.0 (2021-05-18)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GSEABenchmarkeR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GSEABenchmarkeR' version '1.13.5'
* 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 'GSEABenchmarkeR' 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 ... NOTE
evalRelevance: no visible binding for global variable 'REL.SCORE'
Undefined global functions or variables:
  REL.SCORE
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
loadEData      21.36   2.34   29.14
evalTypeIError 18.16   0.22   20.23
runEA           9.12   0.13    9.63
evalRandomGS    5.50   0.44    6.83
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
loadEData      23.12   2.56   31.28
evalTypeIError 22.57   0.42   25.31
runEA          11.11   0.24   13.72
evalRandomGS    6.86   0.33    8.30
* 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 NOTE
See
  'D:/biocbuild/bbs-3.14-bioc/meat/GSEABenchmarkeR.Rcheck/00check.log'
for details.



Installation output

GSEABenchmarkeR.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/GSEABenchmarkeR_1.13.5.tar.gz && rm -rf GSEABenchmarkeR.buildbin-libdir && mkdir GSEABenchmarkeR.buildbin-libdir && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GSEABenchmarkeR.buildbin-libdir GSEABenchmarkeR_1.13.5.tar.gz && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL GSEABenchmarkeR_1.13.5.zip && rm GSEABenchmarkeR_1.13.5.tar.gz GSEABenchmarkeR_1.13.5.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
100  298k  100  298k    0     0  2045k      0 --:--:-- --:--:-- --:--:-- 2045k

install for i386

* installing *source* package 'GSEABenchmarkeR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'GSEABenchmarkeR'
    finding HTML links ... done
    bpPlot                                  html  
    cacheResource                           html  
    finding level-2 HTML links ... done

    evalNrSigSets                           html  
    evalRandomGS                            html  
    evalRelevance                           html  
    evalTypeIError                          html  
    loadEData                               html  
    maPreproc                               html  
    readDataId2diseaseCodeMap               html  
    readResults                             html  
    runDE                                   html  
    runEA                                   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 'GSEABenchmarkeR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GSEABenchmarkeR' as GSEABenchmarkeR_1.13.5.zip
* DONE (GSEABenchmarkeR)
* installing to library 'D:/biocbuild/bbs-3.14-bioc/R/library'
package 'GSEABenchmarkeR' successfully unpacked and MD5 sums checked

Tests output


Example timings

GSEABenchmarkeR.Rcheck/examples_i386/GSEABenchmarkeR-Ex.timings

nameusersystemelapsed
bpPlot0.020.000.01
cacheResource1.730.202.02
evalNrSigSets1.340.052.33
evalRandomGS5.500.446.83
evalRelevance0.610.001.35
evalTypeIError18.16 0.2220.23
loadEData21.36 2.3429.14
maPreproc2.310.733.09
readDataId2diseaseCodeMap0.020.000.02
readResults0.150.000.17
runDE1.150.221.76
runEA9.120.139.63

GSEABenchmarkeR.Rcheck/examples_x64/GSEABenchmarkeR-Ex.timings

nameusersystemelapsed
bpPlot000
cacheResource2.720.173.41
evalNrSigSets2.610.023.03
evalRandomGS6.860.338.30
evalRelevance0.370.000.38
evalTypeIError22.57 0.4225.31
loadEData23.12 2.5631.28
maPreproc2.490.974.03
readDataId2diseaseCodeMap000
readResults0.240.000.42
runDE1.230.311.79
runEA11.11 0.2413.72