Back to Multiple platform build/check report for BioC 3.9 experimental data

CHECK report for PREDAsampledata on malbec2

This page was generated on 2019-10-17 16:51:24 -0400 (Thu, 17 Oct 2019).

Package 267/371HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PREDAsampledata 0.24.0
Francesco Ferrari
Snapshot Date: 2019-10-17 09:00:12 -0400 (Thu, 17 Oct 2019)
URL: https://git.bioconductor.org/packages/PREDAsampledata
Branch: RELEASE_3_9
Last Commit: 90dcff3
Last Changed Date: 2019-05-02 11:56:24 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: PREDAsampledata
Version: 0.24.0
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:PREDAsampledata.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings PREDAsampledata_0.24.0.tar.gz
StartedAt: 2019-10-17 13:38:54 -0400 (Thu, 17 Oct 2019)
EndedAt: 2019-10-17 13:40:53 -0400 (Thu, 17 Oct 2019)
EllapsedTime: 119.4 seconds
RetCode: 0
Status:  OK 
CheckDir: PREDAsampledata.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:PREDAsampledata.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings PREDAsampledata_0.24.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.9-data-experiment/meat/PREDAsampledata.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PREDAsampledata/DESCRIPTION’ ... OK
* this is package ‘PREDAsampledata’ version ‘0.24.0’
* 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 ‘PREDAsampledata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 80.4Mb
  sub-directories of 1Mb or more:
    data        59.6Mb
    sampledata  20.7Mb
* checking package 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 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 ... NOTE
Packages in Depends field not imported from:
  ‘Biobase’ ‘PREDA’ ‘affy’ ‘annotate’ ‘methods’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
              user system elapsed
AffybatchRCC 6.186  0.157   7.485
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.9-data-experiment/meat/PREDAsampledata.Rcheck/00check.log’
for details.



Installation output

PREDAsampledata.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL PREDAsampledata
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘PREDAsampledata’ ...
** using staged installation
** R
** data
** 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 (PREDAsampledata)

Tests output


Example timings

PREDAsampledata.Rcheck/PREDAsampledata-Ex.timings

nameusersystemelapsed
AffybatchRCC6.1860.1577.485
ExpressionSetRCC0.9540.0080.961
GEanalysisResults0.2130.0000.212
SODEGIRCNDataForPREDA1.0650.0441.109
SODEGIRCNanalysisResults0.2780.0080.286
SODEGIRGEDataForPREDA0.2740.0080.282
SODEGIRGEanalysisResults0.4980.0120.511