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This page was generated on 2023-04-11 14:50:27 -0400 (Tue, 11 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for QDNAseq.mm10 on nebbiolo2


To the developers/maintainers of the QDNAseq.mm10 package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 302/416HostnameOS / ArchINSTALLBUILDCHECK
QDNAseq.mm10 1.28.0  (landing page)
Daoud Sie
Snapshot Date: 2023-04-11 07:30:01 -0400 (Tue, 11 Apr 2023)
git_url: https://git.bioconductor.org/packages/QDNAseq.mm10
git_branch: RELEASE_3_16
git_last_commit: fd9b497
git_last_commit_date: 2022-11-01 11:08:26 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: QDNAseq.mm10
Version: 1.28.0
Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:QDNAseq.mm10.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings QDNAseq.mm10_1.28.0.tar.gz
StartedAt: 2023-04-11 12:10:45 -0400 (Tue, 11 Apr 2023)
EndedAt: 2023-04-11 12:12:40 -0400 (Tue, 11 Apr 2023)
EllapsedTime: 115.4 seconds
RetCode: 0
Status:   OK  
CheckDir: QDNAseq.mm10.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:QDNAseq.mm10.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings QDNAseq.mm10_1.28.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.16-data-experiment/meat/QDNAseq.mm10.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘QDNAseq.mm10/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘QDNAseq.mm10’ 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 ‘QDNAseq.mm10’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 31.3Mb
  sub-directories of 1Mb or more:
    data  31.2Mb
* 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 loading without being on the library search path ... 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
mm10.1kbp.SR50 12.465  0.364  12.829
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.16-data-experiment/meat/QDNAseq.mm10.Rcheck/00check.log’
for details.



Installation output

QDNAseq.mm10.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL QDNAseq.mm10
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/site-library’
* installing *source* package ‘QDNAseq.mm10’ ...
** 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.mm10)

Tests output


Example timings

QDNAseq.mm10.Rcheck/QDNAseq.mm10-Ex.timings

nameusersystemelapsed
QDNAseq.mm10-package0.3160.0160.331
mm10.1000kbp.SR500.0150.0040.018
mm10.100kbp.SR500.1030.0080.111
mm10.10kbp.SR501.3280.0241.353
mm10.15kbp.SR500.9760.0241.000
mm10.1kbp.SR5012.465 0.36412.829
mm10.30kbp.SR500.3170.0200.337
mm10.500kbp.SR500.0230.0040.028
mm10.50kbp.SR500.1950.0040.199
mm10.5kbp.SR502.5960.0682.664