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CHECK report for ropls on merida2

This page was generated on 2019-04-09 13:31:49 -0400 (Tue, 09 Apr 2019).

Package 1382/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ropls 1.15.26
Etienne A. Thevenot
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/ropls
Branch: master
Last Commit: e187734
Last Changed Date: 2019-03-07 11:32:33 -0400 (Thu, 07 Mar 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK [ OK ] OK 

Summary

Package: ropls
Version: 1.15.26
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ropls.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ropls_1.15.26.tar.gz
StartedAt: 2019-04-09 03:26:31 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 03:27:45 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 74.1 seconds
RetCode: 0
Status:  OK 
CheckDir: ropls.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ropls.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ropls_1.15.26.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/ropls.Rcheck’
* using R Under development (unstable) (2018-11-27 r75683)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ropls/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ropls’ version ‘1.15.26’
* 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 ‘ropls’ 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 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 ... NOTE
Warning: no function found corresponding to methods exports from ‘ropls’ for: ‘residuals’

A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.

Probably some imports need to be declared in the NAMESPACE file.
* 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 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 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: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.9-bioc/meat/ropls.Rcheck/00check.log’
for details.



Installation output

ropls.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL ropls
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘ropls’ ...
** 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
* DONE (ropls)

Tests output


Example timings

ropls.Rcheck/ropls-Ex.timings

nameusersystemelapsed
checkW4M0.2210.0070.231
coef1.2010.1661.371
fitted1.8000.1461.956
fromW4M0.1880.0020.190
getEset1.0110.1291.144
getLoadingMN1.0880.1351.235
getPcaVarVn0.1340.0080.145
getScoreMN1.0300.1281.161
getSubsetVi0.1070.0030.113
getSummaryDF1.0070.1201.134
getVipVn1.0990.1251.235
getWeightMN1.0100.1211.140
imageF0.0590.0050.064
opls-class3.1790.2153.418
opls3.9790.3554.361
plot2.3820.1862.582
predict0.0870.0030.090
print0.9200.1231.050
residuals0.7120.0520.767
ropls-package3.7050.3264.045
show0.9610.1361.104
strF0.0230.0020.025
tested0.1140.0090.123
toW4M0.1510.0040.156