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This page was generated on 2022-06-27 11:05:23 -0400 (Mon, 27 Jun 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" 4331
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CHECK results for metapone on nebbiolo2


To the developers/maintainers of the metapone package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/metapone.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1122/2118HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
metapone 1.3.2  (landing page)
Tianwei Yu
Snapshot Date: 2022-06-26 14:00:03 -0400 (Sun, 26 Jun 2022)
git_url: https://git.bioconductor.org/packages/metapone
git_branch: master
git_last_commit: 3d98c60
git_last_commit_date: 2022-06-03 21:25:15 -0400 (Fri, 03 Jun 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: metapone
Version: 1.3.2
Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:metapone.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/library --no-vignettes --timings metapone_1.3.2.tar.gz
StartedAt: 2022-06-26 20:30:14 -0400 (Sun, 26 Jun 2022)
EndedAt: 2022-06-26 20:33:20 -0400 (Sun, 26 Jun 2022)
EllapsedTime: 185.9 seconds
RetCode: 0
Status:   OK  
CheckDir: metapone.Rcheck
Warnings: 0

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:metapone.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/library --no-vignettes --timings metapone_1.3.2.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.16-bioc/meat/metapone.Rcheck’
* using R version 4.2.0 Patched (2022-06-02 r82447)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘metapone/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘metapone’ version ‘1.3.2’
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
  'BiocParallel', 'fields', 'markdown', 'fdrtool', 'fgsea', 'ggplot2',
  'ggrepel'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* 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 ‘metapone’ 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 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                      user system elapsed
metapone            53.844  5.959  25.911
ftable              27.500  2.938  11.328
bbplot2d            27.823  2.494  11.074
bbplot1d            27.135  1.984  11.374
ptable              26.001  3.078  10.756
hmdbCompMZ           6.900  0.153   7.052
hmdbCompMZ.metapone  6.231  0.068   6.299
neg                  4.768  0.240   0.034
* 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 NOTE
See
  ‘/home/biocbuild/bbs-3.16-bioc/meat/metapone.Rcheck/00check.log’
for details.



Installation output

metapone.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL metapone
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/library’
* installing *source* package ‘metapone’ ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘ftable’ in package ‘metapone’
** 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 (metapone)

Tests output


Example timings

metapone.Rcheck/metapone-Ex.timings

nameusersystemelapsed
bbplot1d27.135 1.98411.374
bbplot2d27.823 2.49411.074
ftable27.500 2.93811.328
hmdbCompMZ6.9000.1537.052
hmdbCompMZ.metapone6.2310.0686.299
metapone53.844 5.95925.911
neg4.7680.2400.034
pa0.0480.0000.049
pos0.0440.0040.048
ptable26.001 3.07810.756