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This page was generated on 2023-10-12 14:51:36 -0400 (Thu, 12 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4626
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

Package 307/421HostnameOS / ArchINSTALLBUILDCHECK
QDNAseq.mm10 1.30.0  (landing page)
Daoud Sie
Snapshot Date: 2023-10-12 07:30:02 -0400 (Thu, 12 Oct 2023)
git_url: https://git.bioconductor.org/packages/QDNAseq.mm10
git_branch: RELEASE_3_17
git_last_commit: 72c612a
git_last_commit_date: 2023-04-25 10:39:11 -0400 (Tue, 25 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

CHECK results for QDNAseq.mm10 on nebbiolo1


To the developers/maintainers of the QDNAseq.mm10 package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: QDNAseq.mm10
Version: 1.30.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:QDNAseq.mm10.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings QDNAseq.mm10_1.30.0.tar.gz
StartedAt: 2023-10-12 11:53:09 -0400 (Thu, 12 Oct 2023)
EndedAt: 2023-10-12 11:55:34 -0400 (Thu, 12 Oct 2023)
EllapsedTime: 145.2 seconds
RetCode: 0
Status:   OK  
CheckDir: QDNAseq.mm10.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:QDNAseq.mm10.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings QDNAseq.mm10_1.30.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-data-experiment/meat/QDNAseq.mm10.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
* running under: Ubuntu 22.04.3 LTS
* using session charset: UTF-8
* checking for file ‘QDNAseq.mm10/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘QDNAseq.mm10’ version ‘1.30.0’
* 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 31.4Mb
  sub-directories of 1Mb or more:
    data  31.3Mb
* 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 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 15.719   0.44   16.16
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.17-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-3.17-bioc/R/bin/R CMD INSTALL QDNAseq.mm10
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.17-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-package0.8010.0170.817
mm10.1000kbp.SR500.0230.0000.023
mm10.100kbp.SR500.1340.0070.141
mm10.10kbp.SR501.5290.0531.581
mm10.15kbp.SR500.8070.0480.855
mm10.1kbp.SR5015.719 0.44016.160
mm10.30kbp.SR500.3980.0390.438
mm10.500kbp.SR500.0380.0010.038
mm10.50kbp.SR500.2650.0070.273
mm10.5kbp.SR502.3440.1562.500