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CHECK report for MouseGastrulationData on malbec2

This page was generated on 2021-01-11 15:59:24 -0500 (Mon, 11 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE MouseGastrulationData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 234/385HostnameOS / ArchINSTALLBUILDCHECK
MouseGastrulationData 1.5.3
Jonathan Griffiths
Snapshot Date: 2021-01-11 09:00:09 -0500 (Mon, 11 Jan 2021)
URL: https://git.bioconductor.org/packages/MouseGastrulationData
Branch: master
Last Commit: b2c0c63
Last Changed Date: 2020-12-12 07:12:06 -0500 (Sat, 12 Dec 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK  OK 

Summary

Package: MouseGastrulationData
Version: 1.5.3
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:MouseGastrulationData.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings MouseGastrulationData_1.5.3.tar.gz
StartedAt: 2021-01-11 12:25:13 -0500 (Mon, 11 Jan 2021)
EndedAt: 2021-01-11 12:29:53 -0500 (Mon, 11 Jan 2021)
EllapsedTime: 279.5 seconds
RetCode: 0
Status:  OK 
CheckDir: MouseGastrulationData.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:MouseGastrulationData.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings MouseGastrulationData_1.5.3.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-data-experiment/meat/MouseGastrulationData.Rcheck’
* using R Under development (unstable) (2021-01-05 r79797)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MouseGastrulationData/DESCRIPTION’ ... OK
* this is package ‘MouseGastrulationData’ version ‘1.5.3’
* package encoding: UTF-8
* 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 ... NOTE
Found the following hidden files and directories:
  .git_fetch_output.txt
  .git_merge_output.txt
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘MouseGastrulationData’ 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
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
Tal1ChimeraData    33.084  0.768  36.423
TChimeraData       28.632  0.364  31.664
EmbryoAtlasData    26.382  0.388  29.841
WTChimeraData      25.166  0.453  28.181
GuibentifExtraData 12.016  0.103  13.542
* 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-3.13-data-experiment/meat/MouseGastrulationData.Rcheck/00check.log’
for details.



Installation output

MouseGastrulationData.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL MouseGastrulationData
###
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* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘MouseGastrulationData’ ...
** using staged installation
** R
** 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 (MouseGastrulationData)

Tests output


Example timings

MouseGastrulationData.Rcheck/MouseGastrulationData-Ex.timings

nameusersystemelapsed
AtlasSampleMetadata0.0050.0000.006
BPSATACData000
EmbryoAtlasData26.382 0.38829.841
EmbryoCelltypeColours000
GuibentifExtraData12.016 0.10313.542
TChimeraData28.632 0.36431.664
Tal1ChimeraData33.084 0.76836.423
WTChimeraData25.166 0.45328.181