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This page was generated on 2021-11-26 15:04:50 -0500 (Fri, 26 Nov 2021).

CHECK results for ffpe on nebbiolo2

To the developers/maintainers of the ffpe package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ffpe.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here 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 637/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ffpe 1.38.0  (landing page)
Levi Waldron
Snapshot Date: 2021-11-25 04:15:05 -0500 (Thu, 25 Nov 2021)
git_url: https://git.bioconductor.org/packages/ffpe
git_branch: RELEASE_3_14
git_last_commit: 8c9afae
git_last_commit_date: 2021-10-26 12:02:18 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: ffpe
Version: 1.38.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:ffpe.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings ffpe_1.38.0.tar.gz
StartedAt: 2021-11-25 09:24:48 -0500 (Thu, 25 Nov 2021)
EndedAt: 2021-11-25 09:29:08 -0500 (Thu, 25 Nov 2021)
EllapsedTime: 260.1 seconds
RetCode: 0
Status:   OK  
CheckDir: ffpe.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:ffpe.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings ffpe_1.38.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/ffpe.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ffpe/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ffpe’ version ‘1.38.0’
* 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 ‘ffpe’ 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 ... NOTE
CATplot: no visible global function definition for ‘abline’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘cor’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘median’
sampleQC,matrix : makeplots: no visible binding for global variable
  ‘median’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘na.omit’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘loess’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘predict’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘IQR’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘abline’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘legend’
sampleQC,matrix : makeplots: no visible global function definition for
  ‘lines’
sampleQC,matrix: no visible binding for global variable ‘IQR’
sampleQC,matrix: no visible global function definition for ‘na.omit’
sortedIqrPlot,matrix: no visible binding for global variable ‘quantile’
sortedIqrPlot,matrix: no visible global function definition for
  ‘segments’
sortedIqrPlot,matrix: no visible binding for global variable ‘IQR’
Undefined global functions or variables:
  IQR abline cor legend lines loess median na.omit predict quantile
  segments
Consider adding
  importFrom("graphics", "abline", "legend", "lines", "segments")
  importFrom("stats", "IQR", "cor", "loess", "median", "na.omit",
             "predict", "quantile")
to your NAMESPACE file.
* 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 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-3.14-bioc/meat/ffpe.Rcheck/00check.log’
for details.



Installation output

ffpe.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL ffpe
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘ffpe’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’
** testing if installed package can be loaded from final location
No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’
** testing if installed package keeps a record of temporary installation path
* DONE (ffpe)

Tests output


Example timings

ffpe.Rcheck/ffpe-Ex.timings

nameusersystemelapsed
CATplot3.8590.1964.055
ffpe-package2.8190.2243.043
sampleQC2.1490.0162.164
sortedIqrPlot0.8480.0240.871