Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2021-11-29 15:05:47 -0500 (Mon, 29 Nov 2021).

CHECK results for biocGraph on machv2

To the developers/maintainers of the biocGraph package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biocGraph.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 160/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biocGraph 1.56.0  (landing page)
Florian Hahne
Snapshot Date: 2021-11-28 04:15:06 -0500 (Sun, 28 Nov 2021)
git_url: https://git.bioconductor.org/packages/biocGraph
git_branch: RELEASE_3_14
git_last_commit: 05ec694
git_last_commit_date: 2021-10-26 11:51:19 -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: biocGraph
Version: 1.56.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biocGraph.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biocGraph_1.56.0.tar.gz
StartedAt: 2021-11-28 14:00:53 -0500 (Sun, 28 Nov 2021)
EndedAt: 2021-11-28 14:03:09 -0500 (Sun, 28 Nov 2021)
EllapsedTime: 135.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biocGraph.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biocGraph.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biocGraph_1.56.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/biocGraph.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biocGraph/DESCRIPTION’ ... OK
* this is package ‘biocGraph’ version ‘1.56.0’
* 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 ‘biocGraph’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘Rgraphviz’ ‘graph’ ‘geneplotter’
A package should be listed in only one of these fields.
* 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
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘par’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘AgNode’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘getNodeXY’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘getNodeHeight’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘getNodeLW’
imageMap,Ragraph-connection-list-character: no visible global function
  definition for ‘getNodeRW’
imageMap,graph-connection-list-character: no visible global function
  definition for ‘nodes’
imageMap,graph-connection-list-character: no visible global function
  definition for ‘graphRenderInfo’
Undefined global functions or variables:
  AgNode getNodeHeight getNodeLW getNodeRW getNodeXY graphRenderInfo
  nodes par
Consider adding
  importFrom("graphics", "par")
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 sizes of PDF files under ‘inst/doc’ ... 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: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.14-bioc/meat/biocGraph.Rcheck/00check.log’
for details.



Installation output

biocGraph.Rcheck/00install.out

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biocGraph
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘biocGraph’ ...
** using staged installation
** R
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biocGraph)

Tests output


Example timings

biocGraph.Rcheck/biocGraph-Ex.timings

nameusersystemelapsed
imageMap0.0090.0030.012