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This page was generated on 2024-12-23 12:04 -0500 (Mon, 23 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4744
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4487
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4515
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4467
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 1709/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RedeR 3.2.0  (landing page)
Mauro Castro
Snapshot Date: 2024-12-19 13:00 -0500 (Thu, 19 Dec 2024)
git_url: https://git.bioconductor.org/packages/RedeR
git_branch: RELEASE_3_20
git_last_commit: 641e8f5
git_last_commit_date: 2024-10-29 09:37:40 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published


CHECK results for RedeR on nebbiolo2

To the developers/maintainers of the RedeR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RedeR.git to reflect on this report. See Troubleshooting Build Report for more information.
- 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: RedeR
Version: 3.2.0
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:RedeR.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings RedeR_3.2.0.tar.gz
StartedAt: 2024-12-20 04:38:49 -0500 (Fri, 20 Dec 2024)
EndedAt: 2024-12-20 04:39:25 -0500 (Fri, 20 Dec 2024)
EllapsedTime: 36.0 seconds
RetCode: 0
Status:   OK  
CheckDir: RedeR.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:RedeR.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings RedeR_3.2.0.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/RedeR.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘RedeR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RedeR’ version ‘3.2.0’
* 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 ‘RedeR’ 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 ... 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) nestNodes-methods.Rd:47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:53-54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:38: 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.20-bioc/meat/RedeR.Rcheck/00check.log’
for details.


Installation output

RedeR.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL RedeR
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’
* installing *source* package ‘RedeR’ ...
** using staged installation
** R
** data
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (RedeR)

Tests output


Example timings

RedeR.Rcheck/RedeR-Ex.timings

nameusersystemelapsed
Deprecated000
RedPort0.0030.0010.003
RedeR-data10.0470.0010.049
RedeR-data20.0190.0010.020
addEdges-methods0.010.000.01
addGraph-methods0.0760.0210.097
addGraphToRedeR0.0100.0020.012
addLegendToRedeR000
addNodes-methods0.0060.0000.007
calld-methods0.0020.0000.001
deleteEdges-methods0.0060.0010.007
deleteNodes-methods0.0060.0010.007
exitRedeR000
exitd-methods0.0020.0000.002
getGraph-methods0.0090.0020.010
getGraphFromRedeR0.0160.0000.016
mergeOutEdges-methods0.0080.0000.008
nestNodes-methods0.0270.0010.028
ping-methods0.0020.0000.001
pingRedeR000
relax-methods0.0110.0000.011
relaxRedeR0.0090.0000.009
resetRedeR000
resetd-methods0.0010.0000.001
selectEdges-methods0.0070.0010.007
selectNodes-methods0.0070.0000.007
startRedeR000
subg000
transform.attributes0.0160.0020.018
updateLayoutFromRedeR0.0090.0000.010
version-methods0.0010.0000.001