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This page was generated on 2024-03-28 11:36:11 -0400 (Thu, 28 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_64R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" 4708
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" 4446
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" 4471
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" 4426
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 91/2270HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
arrayMvout 1.61.0  (landing page)
V. Carey
Snapshot Date: 2024-03-27 14:00:18 -0400 (Wed, 27 Mar 2024)
git_url: https://git.bioconductor.org/packages/arrayMvout
git_branch: devel
git_last_commit: 55e3a51
git_last_commit_date: 2023-10-24 09:40:59 -0400 (Tue, 24 Oct 2023)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    OK  

CHECK results for arrayMvout on nebbiolo1


To the developers/maintainers of the arrayMvout package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/arrayMvout.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: arrayMvout
Version: 1.61.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:arrayMvout.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings arrayMvout_1.61.0.tar.gz
StartedAt: 2024-03-27 20:16:03 -0400 (Wed, 27 Mar 2024)
EndedAt: 2024-03-27 20:21:29 -0400 (Wed, 27 Mar 2024)
EllapsedTime: 326.3 seconds
RetCode: 0
Status:   OK  
CheckDir: arrayMvout.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:arrayMvout.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings arrayMvout_1.61.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/arrayMvout.Rcheck’
* using R Under development (unstable) (2024-03-18 r86148)
* 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 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘arrayMvout/DESCRIPTION’ ... OK
* this is package ‘arrayMvout’ version ‘1.61.0’
* 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 ‘arrayMvout’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 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
.affyArrayOutliers: no visible global function definition for ‘qc’
.affyArrayOutliers: no visible global function definition for ‘avbg’
.affyArrayOutliers: no visible global function definition for ‘sfs’
.affyArrayOutliers: no visible global function definition for
  ‘percent.present’
.affyArrayOutliers: no visible global function definition for ‘ratios’
.affyArrayOutliers: no visible global function definition for ‘fitPLM’
.affyArrayOutliers: no visible global function definition for ‘prcomp’
.lumiArrayOutliers: no visible global function definition for ‘prcomp’
ArrayOutliers,data.frame-numeric-ANY: no visible global function
  definition for ‘prcomp’
plot,arrOutStruct-ANY: no visible global function definition for
  ‘biplot’
plot,arrOutStruct-ANY: no visible global function definition for
  ‘prcomp’
Undefined global functions or variables:
  avbg biplot fitPLM percent.present prcomp qc ratios sfs
Consider adding
  importFrom("stats", "biplot", "prcomp")
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 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: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-bioc/meat/arrayMvout.Rcheck/00check.log’
for details.


Installation output

arrayMvout.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL arrayMvout
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘arrayMvout’ ...
** using staged installation
** R
** data
** 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 (arrayMvout)

Tests output


Example timings

arrayMvout.Rcheck/arrayMvout-Ex.timings

nameusersystemelapsed
ArrayOutliers-methods0.0110.0040.015
ArrayOutliers0.0000.0000.001
arrOutStruct-class0.0650.0010.065