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CHECK report for dcGSA on malbec1

This page was generated on 2021-02-22 12:29:17 -0500 (Mon, 22 Feb 2021).

To the developers/maintainers of the dcGSA package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 430/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
dcGSA 1.18.0
Jiehuan sun
Snapshot Date: 2021-02-21 14:52:07 -0500 (Sun, 21 Feb 2021)
URL: https://git.bioconductor.org/packages/dcGSA
Branch: RELEASE_3_12
Last Commit: a0a7d07
Last Changed Date: 2020-10-27 11:09:54 -0500 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version exists in internal repository
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  
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    WARNINGS    OK  UNNEEDED, same version exists in internal repository

Summary

Package: dcGSA
Version: 1.18.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:dcGSA.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings dcGSA_1.18.0.tar.gz
StartedAt: 2021-02-22 01:10:45 -0500 (Mon, 22 Feb 2021)
EndedAt: 2021-02-22 01:11:29 -0500 (Mon, 22 Feb 2021)
EllapsedTime: 43.7 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: dcGSA.Rcheck
Warnings: 1

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:dcGSA.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings dcGSA_1.18.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/dcGSA.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 ‘dcGSA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘dcGSA’ 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 ‘dcGSA’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
  ‘dcGSA.Rmd’, ‘dcGSA.bib’
Files named as vignettes but with no recognized vignette engine:
   ‘vignettes/dcGSA.Rmd’
(Is a VignetteBuilder field missing?)
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING
See
  ‘/home/biocbuild/bbs-3.12-bioc/meat/dcGSA.Rcheck/00check.log’
for details.



Installation output

dcGSA.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL dcGSA
###
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* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘dcGSA’ ...
** 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 (dcGSA)

Tests output


Example timings

dcGSA.Rcheck/dcGSA-Ex.timings

nameusersystemelapsed
LDcov0.0200.0080.028
dcGSA0.6840.0160.732
dcGSAtest0.0000.0000.001
readGMT0.0040.0000.002