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This page was generated on 2024-10-16 08:30 -0400 (Wed, 16 Oct 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4763
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 33/46HostnameOS / ArchINSTALLBUILDCHECK
metaboliteIDmapping 0.99.10  (landing page)
Sebastian Canzler
Snapshot Date: 2024-10-16 06:00 -0400 (Wed, 16 Oct 2024)
git_url: https://git.bioconductor.org/packages/metaboliteIDmapping
git_branch: RELEASE_3_19
git_last_commit: 97d7d72
git_last_commit_date: 2021-05-10 03:06:59 -0400 (Mon, 10 May 2021)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    ERROR  


CHECK results for metaboliteIDmapping on nebbiolo1

To the developers/maintainers of the metaboliteIDmapping 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: metaboliteIDmapping
Version: 0.99.10
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:metaboliteIDmapping.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings metaboliteIDmapping_0.99.10.tar.gz
StartedAt: 2024-10-16 06:34:25 -0400 (Wed, 16 Oct 2024)
EndedAt: 2024-10-16 06:41:28 -0400 (Wed, 16 Oct 2024)
EllapsedTime: 423.1 seconds
RetCode: 1
Status:   ERROR  
CheckDir: metaboliteIDmapping.Rcheck
Warnings: NA

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:metaboliteIDmapping.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings metaboliteIDmapping_0.99.10.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-data-annotation/meat/metaboliteIDmapping.Rcheck’
* using R version 4.4.1 (2024-06-14)
* 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 22.04.5 LTS
* using session charset: UTF-8
* checking for file ‘metaboliteIDmapping/DESCRIPTION’ ... OK
* this is package ‘metaboliteIDmapping’ version ‘0.99.10’
* 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 ‘metaboliteIDmapping’ can be installed ... OK
* checking installed package size ... OK
* 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 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 whether startup messages can be suppressed ... NOTE
loading from cache

It looks like this package (or a package it requires) has a startup
message which cannot be suppressed: see ?packageStartupMessage.
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
  ...
--- re-building ‘metaboliteIDmapping.Rmd’ using rmarkdown
Error: processing vignette 'metaboliteIDmapping.Rmd' failed with diagnostics:
there is no package called ‘BiocStyle’
--- failed re-building ‘metaboliteIDmapping.Rmd’

SUMMARY: processing the following file failed:
  ‘metaboliteIDmapping.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.19-data-annotation/meat/metaboliteIDmapping.Rcheck/00check.log’
for details.


Installation output

metaboliteIDmapping.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL metaboliteIDmapping
###
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* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘metaboliteIDmapping’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
loading from cache
** testing if installed package can be loaded from final location
loading from cache
** testing if installed package keeps a record of temporary installation path
* DONE (metaboliteIDmapping)

Tests output


Example timings

metaboliteIDmapping.Rcheck/metaboliteIDmapping-Ex.timings

nameusersystemelapsed
metabolitesMapping0.0440.0040.048