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CHECK report for DvDdata on malbec2

This page was generated on 2021-01-14 15:58:59 -0500 (Thu, 14 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE DvDdata PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 106/385HostnameOS / ArchINSTALLBUILDCHECK
DvDdata 1.27.0
J. Saez-Rodriguez
Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/DvDdata
Branch: master
Last Commit: 18a7380
Last Changed Date: 2020-10-27 10:00:42 -0500 (Tue, 27 Oct 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: DvDdata
Version: 1.27.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:DvDdata.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings DvDdata_1.27.0.tar.gz
StartedAt: 2021-01-14 12:02:19 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 12:02:33 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 13.1 seconds
RetCode: 0
Status:  OK 
CheckDir: DvDdata.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:DvDdata.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings DvDdata_1.27.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-data-experiment/meat/DvDdata.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 ‘DvDdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DvDdata’ version ‘1.27.0’
* 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 ... 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 ‘DvDdata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 44.0Mb
  sub-directories of 1Mb or more:
    data  43.9Mb
* 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 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 Rd files ... NOTE
prepare_Rd: DvDdata-package.Rd:35-37: Dropping empty section \seealso
prepare_Rd: GEOfactorvalues.Rd:18-20: Dropping empty section \references
prepare_Rd: annotationlist.Rd:17-18: Dropping empty section \source
prepare_Rd: druglabels.Rd:11-13: Dropping empty section \details
prepare_Rd: genelist.Rd:14-16: Dropping empty section \source
* 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: 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.13-data-experiment/meat/DvDdata.Rcheck/00check.log’
for details.



Installation output

DvDdata.Rcheck/00install.out

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

Tests output


Example timings

DvDdata.Rcheck/DvDdata-Ex.timings

nameusersystemelapsed
DvDdata-package0.010.000.01
GEOfactorvalues0.0000.0000.001
annotationlist0.0000.0000.001
cytodisease0.0000.0000.001
cytodrug000
diseaseClusters000
diseaseRL000
diseaselabels000
drugClusters000
drugRL000
druglabels000
genelist000