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CHECK report for MSstatsBioData on malbec1

This page was generated on 2021-01-14 14:10:26 -0500 (Thu, 14 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE MSstatsBioData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 246/398HostnameOS / ArchINSTALLBUILDCHECK
MSstatsBioData 1.12.0
Meena Choi
Snapshot Date: 2021-01-14 09:00:17 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/MSstatsBioData
Branch: RELEASE_3_12
Last Commit: e2631a8
Last Changed Date: 2020-10-27 10:23:13 -0500 (Tue, 27 Oct 2020)
malbec1 Linux (Ubuntu 18.04.5 LTS) / x86_64  OK  OK [ WARNINGS ]UNNEEDED, same version exists in internal repository
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  WARNINGS 

Summary

Package: MSstatsBioData
Version: 1.12.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:MSstatsBioData.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings MSstatsBioData_1.12.0.tar.gz
StartedAt: 2021-01-14 12:45:28 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 12:47:58 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 150.1 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: MSstatsBioData.Rcheck
Warnings: 1

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:MSstatsBioData.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings MSstatsBioData_1.12.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.12-data-experiment/meat/MSstatsBioData.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MSstatsBioData/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MSstatsBioData’ version ‘1.12.0’
* package encoding: UTF-8
* 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 ‘MSstatsBioData’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data   5.0Mb
* 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 ... 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 ... WARNING
File ‘data/datalist’ contains malformed line(s):
  ‘’
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
SRM_crc_validation 65.868  0.036  65.959
DDA_cardio         32.028  0.372  32.963
SRM_crc_training   19.456  0.028  19.506
SRM_mpm_validation  8.120  0.012   8.144
SRM_mpm_training    6.920  0.008   6.978
* 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: 1 WARNING, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.12-data-experiment/meat/MSstatsBioData.Rcheck/00check.log’
for details.



Installation output

MSstatsBioData.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL MSstatsBioData
###
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* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘MSstatsBioData’ ...
** using staged installation
** data
*** moving datasets to lazyload DB
** inst
** 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 (MSstatsBioData)

Tests output


Example timings

MSstatsBioData.Rcheck/MSstatsBioData-Ex.timings

nameusersystemelapsed
DDA_cardio32.028 0.37232.963
SRM_crc_training19.456 0.02819.506
SRM_crc_validation65.868 0.03665.959
SRM_mpm_training6.9200.0086.978
SRM_mpm_validation8.1200.0128.144
SRM_ovarian3.4760.0123.496
SRM_yeast4.3760.0044.388