Back to Multiple platform build/check report for BioC 3.11
ABCDEFGH[I]JKLMNOPQRSTUVWXYZ

CHECK report for iCheck on malbec2

This page was generated on 2020-10-17 11:54:57 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE iCheck PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 849/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iCheck 1.18.0
Weiliang Qiu
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/iCheck
Branch: RELEASE_3_11
Last Commit: 4617ab4
Last Changed Date: 2020-04-27 14:51:38 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: iCheck
Version: 1.18.0
Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:iCheck.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings iCheck_1.18.0.tar.gz
StartedAt: 2020-10-17 02:16:08 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 02:22:23 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 375.8 seconds
RetCode: 0
Status:  OK 
CheckDir: iCheck.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:iCheck.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings iCheck_1.18.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.11-bioc/meat/iCheck.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘iCheck/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘iCheck’ version ‘1.18.0’
* 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 ‘iCheck’ 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 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: OK


Installation output

iCheck.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL iCheck
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’
* installing *source* package ‘iCheck’ ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’
** testing if installed package can be loaded from final location
No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’
** testing if installed package keeps a record of temporary installation path
* DONE (iCheck)

Tests output


Example timings

iCheck.Rcheck/iCheck-Ex.timings

nameusersystemelapsed
LumiBatch2Table0.1960.0080.204
R2PlotFunc0.3580.0280.386
boxPlots0.2760.0200.296
densityPlots0.1270.0080.135
genSimData.BayesNormal0.0550.0000.055
getPCAFunc0.0720.0120.085
glmWrapper0.6760.0040.679
lkhrWrapper0.7870.0200.807
lmFitPaired0.0620.0080.069
lmFitWrapper0.0630.0070.070
pca2DPlot0.1170.0040.121
pca3DPlot0.0750.0120.087
plotCurves0.060.000.06
plotQCCurves0.0900.0040.094
plotSamplep95p050.0740.0040.078
quantilePlot0.1200.0040.124
scatterPlots0.1590.0120.170
sortExpressionSet0.0750.0080.084