Back to Multiple platform build/check report for BioC 3.13
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This page was generated on 2021-10-15 15:05:48 -0400 (Fri, 15 Oct 2021).

CHECK results for Pi on nebbiolo1

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? 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 1390/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Pi 2.4.0  (landing page)
Hai Fang
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/Pi
git_branch: RELEASE_3_13
git_last_commit: e5fb99d
git_last_commit_date: 2021-05-19 12:23:10 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: Pi
Version: 2.4.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:Pi.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings Pi_2.4.0.tar.gz
StartedAt: 2021-10-14 11:01:49 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 11:04:57 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 187.8 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: Pi.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:Pi.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings Pi_2.4.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/Pi.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 ‘Pi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Pi’ version ‘2.4.0’
* 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 for sufficient/correct file permissions ... 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 ‘/home/biocbuild/bbs-3.13-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 ... 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 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: 1 WARNING
See
  ‘/home/biocbuild/bbs-3.13-bioc/meat/Pi.Rcheck/00check.log’
for details.



Installation output

Pi.Rcheck/00install.out

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##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL Pi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.13-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
GS0.0010.0000.001
aOnto0.0010.0000.000
cTarget0.0010.0000.000
dTarget000
eGSEA0.0000.0000.001
eTarget0.0000.0000.001
eTerm000
iSubg0.0010.0000.000
ls_eTerm000
pNode0.0000.0000.001
pPerf0.0000.0000.001
sGS000
sTarget0.0000.0010.000
xAggregate0.0000.0010.000
xCheckParallel000
xCircos0.0000.0010.001
xColormap0.0110.0030.014
xCombineNet0.0000.0000.001
xContour0.0310.0030.033
xConverter0.0220.0000.021
xCorrelation000
xDAGanno0.0000.0010.001
xDefineEQTL0.0000.0010.000
xDefineHIC0.0000.0000.001
xDefineNet0.0000.0010.001
xDefineOntology0.0000.0000.001
xEnrichForest0.0000.0010.001
xEnrichViewer000
xEnricher0.0000.0010.001
xEnricherGenes0.0000.0010.000
xGGnetwork0.0000.0010.002
xGR0.0000.0000.001
xGR2nGenes0.0000.0010.001
xGR2xGeneScores0.0000.0010.000
xGR2xGenes0.0000.0010.000
xGRscores0.0000.0010.000
xGRsort0.0000.0010.000
xGSEAbarplot0.0000.0010.000
xGSEAconciser0.0000.0010.000
xGSEAdotplot000
xGSsimulator0.0000.0000.001
xGeneID2Symbol0.0000.0000.001
xHeatmap000
xLayout0.0000.0000.001
xLiftOver0.0000.0000.001
xMEabf000
xMLcaret000
xMLcompare000
xMLdensity000
xMLdotplot0.0010.0000.001
xMLfeatureplot000
xMLglmnet000
xMLparameters0.0000.0010.000
xMLrandomforest000
xMLrename0.0000.0010.001
xMLzoom000
xPieplot0.0010.0000.001
xPier0.0010.0000.001
xPierABF0.0010.0000.001
xPierABFheatmap0.0000.0000.001
xPierAnno0.0000.0000.001
xPierCor0.0000.0000.001
xPierCross0.0000.0000.001
xPierEvidence000
xPierGRs0.0000.0000.001
xPierGSEA0.0000.0000.001
xPierGenes0.0000.0000.001
xPierMRS000
xPierManhattan0.0010.0000.001
xPierMatrix0.0010.0000.001
xPierPathways0.0010.0000.001
xPierROCR0.0000.0000.001
xPierSNPs0.0000.0010.001
xPierSNPsAdv0.0000.0010.001
xPierSNPsAdvABF0.0000.0000.001
xPierSubnet0.0000.0010.001
xPierTrack0.0000.0010.000
xPierTrackAdv0.0000.0010.000
xPredictCompare000
xPredictROCR000
xRDataLoader000
xRWR0.0010.0000.002
xSM2DF0.0110.0000.011
xSNP2cGenes000
xSNP2eGenes0.0000.0010.000
xSNP2nGenes0.0000.0010.000
xSNPlocations000
xSNPscores000
xSparseMatrix0.0060.0030.009
xSubneterGenes0.0010.0000.002
xSymbol2GeneID0.0000.0000.001
xVisEvidence0.0000.0000.001
xVisEvidenceAdv0.0000.0000.001
xVisKernels0.0150.0040.019
xVisNet0.0000.0010.001