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This page was generated on 2021-10-19 15:52:18 -0400 (Tue, 19 Oct 2021).

CHECK results for QDNAseq.hg19 on nebbiolo2

To the developers/maintainers of the QDNAseq.hg19 package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 294/404HostnameOS / ArchINSTALLBUILDCHECK
QDNAseq.hg19 1.23.0  (landing page)
Daoud Sie
Snapshot Date: 2021-10-19 09:30:02 -0400 (Tue, 19 Oct 2021)
git_url: https://git.bioconductor.org/packages/QDNAseq.hg19
git_branch: master
git_last_commit: 57bdd36
git_last_commit_date: 2021-05-19 11:53:02 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: QDNAseq.hg19
Version: 1.23.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:QDNAseq.hg19.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings QDNAseq.hg19_1.23.0.tar.gz
StartedAt: 2021-10-19 12:31:58 -0400 (Tue, 19 Oct 2021)
EndedAt: 2021-10-19 12:34:01 -0400 (Tue, 19 Oct 2021)
EllapsedTime: 122.2 seconds
RetCode: 0
Status:   OK  
CheckDir: QDNAseq.hg19.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:QDNAseq.hg19.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings QDNAseq.hg19_1.23.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.14-data-experiment/meat/QDNAseq.hg19.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘QDNAseq.hg19/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘QDNAseq.hg19’ version ‘1.23.0’
* 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 ‘QDNAseq.hg19’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 35.4Mb
  sub-directories of 1Mb or more:
    data  35.3Mb
* 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 examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                 user system elapsed
hg19.1kbp.SR50 16.355  0.716  17.071
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.14-data-experiment/meat/QDNAseq.hg19.Rcheck/00check.log’
for details.



Installation output

QDNAseq.hg19.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL QDNAseq.hg19
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘QDNAseq.hg19’ ...
** 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 (QDNAseq.hg19)

Tests output


Example timings

QDNAseq.hg19.Rcheck/QDNAseq.hg19-Ex.timings

nameusersystemelapsed
QDNAseq.hg19-package0.8070.0080.815
hg19.1000kbp.SR500.0210.0000.021
hg19.100kbp.SR500.1550.0000.155
hg19.10kbp.SR501.4860.0631.550
hg19.15kbp.SR501.1840.0561.240
hg19.1kbp.SR5016.355 0.71617.071
hg19.30kbp.SR500.3870.0250.411
hg19.500kbp.SR500.0310.0040.035
hg19.50kbp.SR500.2480.0200.268
hg19.5kbp.SR502.6950.1842.879