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CHECK report for msdata on malbec2

This page was generated on 2021-01-14 15:59:03 -0500 (Thu, 14 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE msdata PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 236/385HostnameOS / ArchINSTALLBUILDCHECK
msdata 0.31.1
Steffen Neumann , Laurent Gatto
Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/msdata
Branch: master
Last Commit: d1cc52d
Last Changed Date: 2020-12-29 12:36:57 -0500 (Tue, 29 Dec 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK  OK 

Summary

Package: msdata
Version: 0.31.1
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:msdata.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings msdata_0.31.1.tar.gz
StartedAt: 2021-01-14 12:29:21 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 12:31:00 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 98.7 seconds
RetCode: 0
Status:  OK 
CheckDir: msdata.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:msdata.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings msdata_0.31.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-data-experiment/meat/msdata.Rcheck’
* using R Under development (unstable) (2021-01-05 r79797)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘msdata/DESCRIPTION’ ... OK
* this is package ‘msdata’ version ‘0.31.1’
* 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 ... NOTE
Found the following hidden files and directories:
  .git_fetch_output.txt
  .git_merge_output.txt
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘msdata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 581.0Mb
  sub-directories of 1Mb or more:
    TripleTOF-SWATH  106.6Mb
    cdf                3.5Mb
    fticr              5.8Mb
    ident              9.4Mb
    iontrap           21.4Mb
    lockmass           4.1Mb
    microtofq         16.8Mb
    mzid               3.9Mb
    proteomics       368.2Mb
    quant              6.8Mb
    sciex             34.0Mb
* 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
msdata 9.378  0.282   9.872
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.13-data-experiment/meat/msdata.Rcheck/00check.log’
for details.



Installation output

msdata.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL msdata
###
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* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘msdata’ ...
** using staged installation
** R
** data
** inst
** 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 (msdata)

Tests output


Example timings

msdata.Rcheck/msdata-Ex.timings

nameusersystemelapsed
msdata9.3780.2829.872
proteomics0.8990.0241.230
sciexdata0.0010.0000.001