Back to Build/check report for BioC 3.12 experimental data
ABCDEFGHIJ[K]LMNOPQRSTUVWXYZ

CHECK report for KEGGdzPathwaysGEO on malbec1

This page was generated on 2021-05-06 14:10:11 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the KEGGdzPathwaysGEO package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 196/398HostnameOS / ArchINSTALLBUILDCHECK
KEGGdzPathwaysGEO 1.28.0  (landing page)
Gaurav Bhatti
Snapshot Date: 2021-05-06 09:00:13 -0400 (Thu, 06 May 2021)
URL: https://git.bioconductor.org/packages/KEGGdzPathwaysGEO
Branch: RELEASE_3_12
Last Commit: 28546ca
Last Changed Date: 2020-10-27 09:56:50 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version exists in internal repository

Summary

Package: KEGGdzPathwaysGEO
Version: 1.28.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:KEGGdzPathwaysGEO.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings KEGGdzPathwaysGEO_1.28.0.tar.gz
StartedAt: 2021-05-06 12:16:21 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 12:21:49 -0400 (Thu, 06 May 2021)
EllapsedTime: 328.1 seconds
RetCode: 0
Status:   OK  
CheckDir: KEGGdzPathwaysGEO.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:KEGGdzPathwaysGEO.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings KEGGdzPathwaysGEO_1.28.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.12-data-experiment/meat/KEGGdzPathwaysGEO.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 ‘KEGGdzPathwaysGEO/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘KEGGdzPathwaysGEO’ version ‘1.28.0’
* 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 ‘KEGGdzPathwaysGEO’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 300.8Mb
  sub-directories of 1Mb or more:
    data  300.6Mb
* 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 ... NOTE
Namespaces in Imports field not imported from:
  ‘Biobase’ ‘BiocGenerics’
  All declared Imports should be used.
* 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 examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.12-data-experiment/meat/KEGGdzPathwaysGEO.Rcheck/00check.log’
for details.



Installation output

KEGGdzPathwaysGEO.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL KEGGdzPathwaysGEO
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘KEGGdzPathwaysGEO’ ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (KEGGdzPathwaysGEO)

Tests output


Example timings

KEGGdzPathwaysGEO.Rcheck/KEGGdzPathwaysGEO-Ex.timings

nameusersystemelapsed
GSE12970.0640.0000.065
GSE147620.1320.0040.136
GSE154710.3000.0160.313
GSE165150.1520.0040.159
GSE188420.3520.0400.390
GSE191880.6320.0400.675
GSE197280.1240.0000.126
GSE201530.1080.0000.108
GSE202910.0720.0000.070
GSE213540.1120.0000.112
GSE34670.1080.0040.114
GSE35850.0360.0040.040
GSE36780.1040.0000.101
GSE41070.1320.0000.133
GSE5281_EC0.1280.0000.129
GSE5281_HIP0.1480.0000.148
GSE5281_VCX0.1640.0000.165
GSE6956AA0.0400.0000.039
GSE6956C0.0800.0080.089
GSE7810.0440.0040.045
GSE86710.2720.0080.281
GSE87620.1360.0000.134
GSE93480.3400.0040.346
GSE94760.1120.0040.117
KEGGdzPathwaysGEO-package0.3080.0320.354