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This page was generated on 2022-01-28 11:07:54 -0500 (Fri, 28 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4167
riesling1Windows Server 2019 Standardx64R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" 4062
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2021-12-21 r81400 ucrt) -- "Unsuffered Consequences" 4004
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4121
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 goProfiles on riesling1


To the developers/maintainers of the goProfiles package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/goProfiles.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 800/2077HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
goProfiles 1.57.0  (landing page)
Alex Sanchez
Snapshot Date: 2022-01-27 13:55:17 -0500 (Thu, 27 Jan 2022)
git_url: https://git.bioconductor.org/packages/goProfiles
git_branch: master
git_last_commit: 4d72d9d
git_last_commit_date: 2021-10-26 11:52:18 -0500 (Tue, 26 Oct 2021)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  NO, package depends on 'Biobase' which is not available
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: goProfiles
Version: 1.57.0
Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:goProfiles.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings goProfiles_1.57.0.tar.gz
StartedAt: 2022-01-27 19:05:20 -0500 (Thu, 27 Jan 2022)
EndedAt: 2022-01-27 19:07:38 -0500 (Thu, 27 Jan 2022)
EllapsedTime: 138.1 seconds
RetCode: 0
Status:   OK  
CheckDir: goProfiles.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:goProfiles.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings goProfiles_1.57.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/goProfiles.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'goProfiles/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'goProfiles' version '1.57.0'
* 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 'goProfiles' 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 ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                      user system elapsed
compareGeneLists     11.47   0.20   11.67
equivalentGOProfiles  7.75   0.22    7.96
* 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

goProfiles.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL goProfiles
###
##############################################################################
##############################################################################


* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'goProfiles' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'goProfiles'
    finding HTML links ... done
    CD4ids                                  html  
    GOTermsList                             html  
    basicProfile                            html  
    clustKidneyMF2                          html  
    compSummary                             html  
    compareGOProfiles                       html  
    compareGeneLists                        html  
    compareProfilesLists                    html  
    contractedProfile                       html  
    conversionFunctions                     html  
    drosophila                              html  
    equivClust                              html  
    equivClust2pdf                          html  
    equivSummary                            html  
    equivalentGOProfiles                    html  
    expandedLevel                           html  
    expandedProfile                         html  
    fisherGOProfiles                        html  
    fitGOProfile                            html  
    goProfiles-package                      html  
    hugoIds                                 html  
    iterEquivClust                          html  
    kidneyGeneLists                         html  
    mergeProfilesLists                      html  
    ngenes                                  html  
    omimIds                                 html  
    plotProfiles                            html  
    printProfiles                           html  
    prostateIds                             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
* DONE (goProfiles)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
  DESCRIPTION file of package 'SWATH2stats' is missing or broken
 done

Tests output


Example timings

goProfiles.Rcheck/goProfiles-Ex.timings

nameusersystemelapsed
CD4ids000
GOTermsList000
basicProfile2.470.092.56
compSummary000
compareGOProfiles2.240.162.40
compareGeneLists11.47 0.2011.67
compareProfilesLists000
contractedProfile0.950.010.97
conversionFunctions0.010.020.03
drosophila0.020.000.02
equivClust000
equivClust2pdf0.050.000.05
equivSummary000
equivalentGOProfiles7.750.227.96
expandedLevel0.560.030.60
expandedProfile0.720.050.76
fisherGOProfiles4.750.064.82
fitGOProfile000
hugoIds0.000.010.01
iterEquivClust000
mergeProfilesLists3.480.083.56
ngenes1.100.021.11
omimIds0.010.000.02
plotProfiles3.050.063.11
printProfiles3.050.033.08
prostateIds000