Back to Multiple platform build/check report for BioC 3.15
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This page was generated on 2022-05-18 12:07:14 -0400 (Wed, 18 May 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 (2022-04-22) -- "Vigorous Calisthenics" 4379
palomino3Windows Server 2022 Datacenterx644.2.0 (2022-04-22 ucrt) -- "Vigorous Calisthenics" 4154
merida1macOS 10.14.6 Mojavex86_644.2.0 (2022-04-22) -- "Vigorous Calisthenics" 4220
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 Pi on palomino3


To the developers/maintainers of the Pi package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Pi.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? 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 1454/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Pi 2.8.0  (landing page)
Hai Fang
Snapshot Date: 2022-05-17 13:55:01 -0400 (Tue, 17 May 2022)
git_url: https://git.bioconductor.org/packages/Pi
git_branch: RELEASE_3_15
git_last_commit: 019a211
git_last_commit_date: 2022-04-26 11:35:45 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: Pi
Version: 2.8.0
Command: F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:Pi.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings Pi_2.8.0.tar.gz
StartedAt: 2022-05-18 02:29:46 -0400 (Wed, 18 May 2022)
EndedAt: 2022-05-18 02:33:26 -0400 (Wed, 18 May 2022)
EllapsedTime: 219.9 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: Pi.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:Pi.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings Pi_2.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.15-bioc/meat/Pi.Rcheck'
* using R version 4.2.0 (2022-04-22 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'Pi/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Pi' version '2.8.0'
* 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 'Pi' can be installed ... WARNING
Found the following significant warnings:
  Warning: replacing previous import 'ROCR::plot' by 'graphics::plot' when loading 'Pi'
See 'F:/biocbuild/bbs-3.15-bioc/meat/Pi.Rcheck/00install.out' for details.
* 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 ... WARNING
'::' or ':::' import not declared from: 'pbapply'
* 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 files in 'vignettes' ... OK
* checking examples ... 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: 2 WARNINGs
See
  'F:/biocbuild/bbs-3.15-bioc/meat/Pi.Rcheck/00check.log'
for details.



Installation output

Pi.Rcheck/00install.out

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


* installing to library 'F:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'Pi' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'ROCR::plot' by 'graphics::plot' when loading 'Pi'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'ROCR::plot' by 'graphics::plot' when loading 'Pi'
** testing if installed package can be loaded from final location
Warning: replacing previous import 'ROCR::plot' by 'graphics::plot' when loading 'Pi'
** testing if installed package keeps a record of temporary installation path
* DONE (Pi)

Tests output


Example timings

Pi.Rcheck/Pi-Ex.timings

nameusersystemelapsed
EG000
GS000
aOnto000
cTarget000
dTarget0.000.010.02
eGSEA000
eTarget000
eTerm000
iSubg000
ls_eTerm000
pNode000
pPerf000
sGS000
sTarget000
xAggregate000
xCheckParallel000
xCircos000
xColormap0.020.000.01
xCombineNet000
xContour0.010.020.03
xConverter0.020.000.03
xCorrelation000
xDAGanno000
xDefineEQTL000
xDefineHIC000
xDefineNet000
xDefineOntology000
xEnrichForest000
xEnrichViewer000
xEnricher000
xEnricherGenes000
xGGnetwork000
xGR000
xGR2nGenes000
xGR2xGeneScores000
xGR2xGenes000
xGRscores000
xGRsort000
xGSEAbarplot000
xGSEAconciser000
xGSEAdotplot000
xGSsimulator000
xGeneID2Symbol000
xHeatmap000
xLayout000
xLiftOver000
xMEabf000
xMLcaret000
xMLcompare000
xMLdensity000
xMLdotplot000
xMLfeatureplot000
xMLglmnet000
xMLparameters000
xMLrandomforest000
xMLrename000
xMLzoom000
xPieplot000
xPier000
xPierABF000
xPierABFheatmap000
xPierAnno000
xPierCor000
xPierCross000
xPierEvidence000
xPierGRs000
xPierGSEA000
xPierGenes000
xPierMRS000
xPierManhattan000
xPierMatrix000
xPierPathways000
xPierROCR000
xPierSNPs000
xPierSNPsAdv000
xPierSNPsAdvABF000
xPierSubnet000
xPierTrack000
xPierTrackAdv000
xPredictCompare000
xPredictROCR000
xRDataLoader000
xRWR000
xSM2DF0.010.000.02
xSNP2cGenes000
xSNP2eGenes000
xSNP2nGenes000
xSNPlocations000
xSNPscores000
xSparseMatrix0.020.000.01
xSubneterGenes000
xSymbol2GeneID000
xVisEvidence000
xVisEvidenceAdv000
xVisKernels0.060.020.08
xVisNet000