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This page was generated on 2021-11-29 15:05:24 -0500 (Mon, 29 Nov 2021).

CHECK results for GSEABenchmarkeR on tokay2

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 833/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GSEABenchmarkeR 1.14.0  (landing page)
Ludwig Geistlinger
Snapshot Date: 2021-11-28 04:15:06 -0500 (Sun, 28 Nov 2021)
git_url: https://git.bioconductor.org/packages/GSEABenchmarkeR
git_branch: RELEASE_3_14
git_last_commit: e2d1e39
git_last_commit_date: 2021-10-26 12:43:02 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 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: GSEABenchmarkeR
Version: 1.14.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GSEABenchmarkeR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings GSEABenchmarkeR_1.14.0.tar.gz
StartedAt: 2021-11-28 23:14:18 -0500 (Sun, 28 Nov 2021)
EndedAt: 2021-11-28 23:20:45 -0500 (Sun, 28 Nov 2021)
EllapsedTime: 386.8 seconds
RetCode: 0
Status:   OK  
CheckDir: GSEABenchmarkeR.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GSEABenchmarkeR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings GSEABenchmarkeR_1.14.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/GSEABenchmarkeR.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 'GSEABenchmarkeR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GSEABenchmarkeR' version '1.14.0'
* 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 '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      36.88   3.69   52.08
evalTypeIError 20.51   0.25   21.21
runEA          12.01   0.22   12.77
evalRandomGS    6.38   0.38    6.86
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
loadEData      33.35   2.65   40.55
evalTypeIError 22.06   0.33   22.39
runEA          13.71   0.22   14.50
evalRandomGS    6.54   0.30    6.82
* 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
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/GSEABenchmarkeR.Rcheck/00check.log'
for details.



Installation output

GSEABenchmarkeR.Rcheck/00install.out

##############################################################################
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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/GSEABenchmarkeR_1.14.0.tar.gz && rm -rf GSEABenchmarkeR.buildbin-libdir && mkdir GSEABenchmarkeR.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GSEABenchmarkeR.buildbin-libdir GSEABenchmarkeR_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL GSEABenchmarkeR_1.14.0.zip && rm GSEABenchmarkeR_1.14.0.tar.gz GSEABenchmarkeR_1.14.0.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
100  298k  100  298k    0     0  1311k      0 --:--:-- --:--:-- --:--:-- 1315k

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_1.14.0.zip
* DONE (GSEABenchmarkeR)
* installing to library 'C:/Users/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
bpPlot0.010.000.02
cacheResource2.310.422.80
evalNrSigSets1.840.061.91
evalRandomGS6.380.386.86
evalRelevance0.540.000.53
evalTypeIError20.51 0.2521.21
loadEData36.88 3.6952.08
maPreproc2.810.293.98
readDataId2diseaseCodeMap0.010.000.02
readResults0.220.000.21
runDE1.990.522.61
runEA12.01 0.2212.77

GSEABenchmarkeR.Rcheck/examples_x64/GSEABenchmarkeR-Ex.timings

nameusersystemelapsed
bpPlot0.020.000.02
cacheResource2.920.243.16
evalNrSigSets2.650.042.71
evalRandomGS6.540.306.82
evalRelevance0.620.000.63
evalTypeIError22.06 0.3322.39
loadEData33.35 2.6540.55
maPreproc2.930.194.23
readDataId2diseaseCodeMap000
readResults0.370.000.59
runDE3.080.753.86
runEA13.71 0.2214.50