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CHECK report for AffymetrixDataTestFiles on malbec2

This page was generated on 2021-01-18 15:58:30 -0500 (Mon, 18 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE AffymetrixDataTestFiles PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 8/385HostnameOS / ArchINSTALLBUILDCHECK
AffymetrixDataTestFiles 0.29.0
Henrik Bengtsson
Snapshot Date: 2021-01-18 09:00:15 -0500 (Mon, 18 Jan 2021)
URL: https://git.bioconductor.org/packages/AffymetrixDataTestFiles
Branch: master
Last Commit: b0450e1
Last Changed Date: 2020-10-27 09:44:28 -0500 (Tue, 27 Oct 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK  OK 

Summary

Package: AffymetrixDataTestFiles
Version: 0.29.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:AffymetrixDataTestFiles.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings AffymetrixDataTestFiles_0.29.0.tar.gz
StartedAt: 2021-01-18 11:36:23 -0500 (Mon, 18 Jan 2021)
EndedAt: 2021-01-18 11:36:46 -0500 (Mon, 18 Jan 2021)
EllapsedTime: 22.9 seconds
RetCode: 0
Status:  OK 
CheckDir: AffymetrixDataTestFiles.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:AffymetrixDataTestFiles.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings AffymetrixDataTestFiles_0.29.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-data-experiment/meat/AffymetrixDataTestFiles.Rcheck’
* using R Under development (unstable) (2021-01-05 r79797)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘AffymetrixDataTestFiles/DESCRIPTION’ ... OK
* this is package ‘AffymetrixDataTestFiles’ version ‘0.29.0’
* 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 ... NOTE
Found the following non-portable file paths:
  AffymetrixDataTestFiles/inst/annotationData/chipTypes/HuGene-1_0-st-v1/HuGene-1_0-st-v1.r4,10_probesets.pgf
  AffymetrixDataTestFiles/inst/annotationData/chipTypes/Mapping10K_Xba131/3.ASCII/Mapping10K_Xba131.CDF

Tarballs are only required to store paths of up to 100 bytes and cannot
store those of more than 256 bytes, with restrictions including to 100
bytes for the final component.
See section ‘Package structure’ in the ‘Writing R Extensions’ manual.
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘AffymetrixDataTestFiles’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 147.5Mb
  sub-directories of 1Mb or more:
    annotationData  70.7Mb
    gcos11Data      49.4Mb
    gcos14Data       6.7Mb
    rawData         20.6Mb
* checking package 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 examples ... NONE
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.13-data-experiment/meat/AffymetrixDataTestFiles.Rcheck/00check.log’
for details.



Installation output

AffymetrixDataTestFiles.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL AffymetrixDataTestFiles
###
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* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘AffymetrixDataTestFiles’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (AffymetrixDataTestFiles)

Tests output


Example timings