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This page was generated on 2024-03-26 14:51:27 -0400 (Tue, 26 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_64R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" 4698
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 252/425HostnameOS / ArchINSTALLBUILDCHECK
msdata 0.43.0  (landing page)
Steffen Neumann , Laurent Gatto
Snapshot Date: 2024-03-26 07:30:03 -0400 (Tue, 26 Mar 2024)
git_url: https://git.bioconductor.org/packages/msdata
git_branch: devel
git_last_commit: a0efb50
git_last_commit_date: 2023-10-24 08:55:20 -0400 (Tue, 24 Oct 2023)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

CHECK results for msdata on nebbiolo1


To the developers/maintainers of the msdata 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: msdata
Version: 0.43.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:msdata.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings msdata_0.43.0.tar.gz
StartedAt: 2024-03-26 11:59:07 -0400 (Tue, 26 Mar 2024)
EndedAt: 2024-03-26 12:01:00 -0400 (Tue, 26 Mar 2024)
EllapsedTime: 112.6 seconds
RetCode: 0
Status:   OK  
CheckDir: msdata.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:msdata.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings msdata_0.43.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-data-experiment/meat/msdata.Rcheck’
* using R Under development (unstable) (2024-03-18 r86148)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘msdata/DESCRIPTION’ ... OK
* this is package ‘msdata’ version ‘0.43.0’
* 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 ‘msdata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 477.9Mb
  sub-directories of 1Mb or more:
    CE-MS              1.2Mb
    TripleTOF-SWATH   51.3Mb
    cdf                2.0Mb
    fticr-mzML         6.2Mb
    ident              1.4Mb
    iontrap            8.5Mb
    lockmass           2.6Mb
    microtofq          9.0Mb
    mzid               3.9Mb
    proteomics       355.8Mb
    quant              4.1Mb
    sciex             31.6Mb
* 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 code 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 ... NOTE
checkRd: (-1) proteomics.Rd:37-65: Lost braces in \itemize; meant \describe ?
checkRd: (-1) proteomics.Rd:68-74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) proteomics.Rd:77-89: Lost braces in \itemize; meant \describe ?
checkRd: (-1) proteomics.Rd:92-98: Lost braces
    92 |     \item{MRM-standmix-5.mzML.gz}:{Sample from mouse brain acquired by
       |                                   ^
checkRd: (-1) sciexdata.Rd:26-29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sciexdata.Rd:31-34: Lost braces in \itemize; meant \describe ?
* 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 13.8  0.531  14.334
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-data-experiment/meat/msdata.Rcheck/00check.log’
for details.


Installation output

msdata.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL msdata
###
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* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-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
msdata13.800 0.53114.334
proteomics1.0990.0191.137
sciexdata0.0010.0000.001