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This page was generated on 2021-10-22 12:04:02 -0400 (Fri, 22 Oct 2021).

CHECK results for GSEABenchmarkeR on nebbiolo2

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 829/2075HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GSEABenchmarkeR 1.13.5  (landing page)
Ludwig Geistlinger
Snapshot Date: 2021-10-21 14:50:08 -0400 (Thu, 21 Oct 2021)
git_url: https://git.bioconductor.org/packages/GSEABenchmarkeR
git_branch: master
git_last_commit: 911c64d
git_last_commit_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  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    NA  

Summary

Package: GSEABenchmarkeR
Version: 1.13.5
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:GSEABenchmarkeR.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings GSEABenchmarkeR_1.13.5.tar.gz
StartedAt: 2021-10-21 20:22:25 -0400 (Thu, 21 Oct 2021)
EndedAt: 2021-10-21 20:26:55 -0400 (Thu, 21 Oct 2021)
EllapsedTime: 270.3 seconds
RetCode: 0
Status:   OK  
CheckDir: GSEABenchmarkeR.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:GSEABenchmarkeR.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings GSEABenchmarkeR_1.13.5.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/GSEABenchmarkeR.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* 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 for sufficient/correct file permissions ... 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
* 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
                 user system elapsed
evalTypeIError 39.191 21.780  63.047
loadEData      24.901  2.825  27.390
runEA          13.530  9.390  12.936
evalRandomGS   12.648  2.573  19.278
cacheResource   6.087  0.294   7.250
* 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
  ‘/home/biocbuild/bbs-3.14-bioc/meat/GSEABenchmarkeR.Rcheck/00check.log’
for details.



Installation output

GSEABenchmarkeR.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL GSEABenchmarkeR
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘GSEABenchmarkeR’ ...
** using staged installation
** R
** inst
** 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 (GSEABenchmarkeR)

Tests output


Example timings

GSEABenchmarkeR.Rcheck/GSEABenchmarkeR-Ex.timings

nameusersystemelapsed
bpPlot0.0110.0040.015
cacheResource6.0870.2947.250
evalNrSigSets3.7810.0123.980
evalRandomGS12.648 2.57319.278
evalRelevance2.5151.1100.691
evalTypeIError39.19121.78063.047
loadEData24.901 2.82527.390
maPreproc1.7140.1992.513
readDataId2diseaseCodeMap0.0050.0000.006
readResults1.1420.4860.248
runDE1.4660.6271.682
runEA13.530 9.39012.936