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CHECK report for made4 on malbec1

This page was generated on 2021-05-06 12:28:07 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the made4 package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 988/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
made4 1.64.0  (landing page)
Aedin Culhane
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/made4
Branch: RELEASE_3_12
Last Commit: 89d0a81
Last Changed Date: 2020-10-27 10:25:28 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version exists in internal repository
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository

Summary

Package: made4
Version: 1.64.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:made4.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings made4_1.64.0.tar.gz
StartedAt: 2021-05-06 03:01:30 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 03:04:16 -0400 (Thu, 06 May 2021)
EllapsedTime: 165.7 seconds
RetCode: 0
Status:   OK  
CheckDir: made4.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:made4.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings made4_1.64.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/made4.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘made4/DESCRIPTION’ ... OK
* this is package ‘made4’ version ‘1.64.0’
* 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 ‘made4’ 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 ... NOTE
prepare_Rd: asDataFrame.Rd:30: Dropping empty section \examples
* 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 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 NOTE
See
  ‘/home/biocbuild/bbs-3.12-bioc/meat/made4.Rcheck/00check.log’
for details.



Installation output

made4.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL made4
###
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* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘made4’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (made4)

Tests output


Example timings

made4.Rcheck/made4-Ex.timings

nameusersystemelapsed
NCI600.0080.0000.006
bet.coinertia0.0080.0000.009
between.graph0.2560.0480.306
bga0.3440.0000.344
bga.jackknife1.8920.0001.897
bga.suppl0.6360.0080.646
cia0.3040.0080.313
commonMap0.0400.0040.045
comparelists0.0000.0000.001
do3d0.6200.0040.625
genes1d0.1640.0000.164
getcol0.0400.0000.041
graph1D0.1200.0000.117
heatplot2.6880.0242.720
html3D0.3600.0000.362
isDataFrame0.0280.0000.029
khan0.0040.0040.009
ord0.3480.0000.351
overview0.1760.0000.177
plotarrays0.2440.0080.252
plotgenes0.1720.0000.172
prettyDend0.0960.0040.097
randomiser0.0000.0000.002
s.var0.2360.0000.236
sumstats0.2840.0040.288
suppl0.6320.0000.634
topgenes0.1240.0000.126