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Package 151/658HostnameOS / ArchBUILDCHECKBUILD BIN
coRNAi 1.9.0
Elin Axelsson
Snapshot Date: 2013-03-23 17:02:20 -0700 (Sat, 23 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/coRNAi
Last Changed Rev: 70052 / Revision: 74756
Last Changed Date: 2012-10-01 15:43:56 -0700 (Mon, 01 Oct 2012)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
pelham Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: coRNAi
Version: 1.9.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch coRNAi_1.9.0.tar.gz
StartedAt: 2013-03-24 04:04:12 -0700 (Sun, 24 Mar 2013)
EndedAt: 2013-03-24 04:08:50 -0700 (Sun, 24 Mar 2013)
EllapsedTime: 277.2 seconds
RetCode: 0
Status:  OK 
CheckDir: coRNAi.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/coRNAi.Rcheck'
* using R version 3.0.0 beta (2013-03-21 r62346)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'coRNAi/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'coRNAi' version '1.9.0'
* 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 'coRNAi' can be installed ... [26s/27s] OK
* checking installed package size ... OK
* 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 for unstated 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
interactiontable: warning in topTable(eBayes(ebfit), n =
  length([email protected][[6]]), sort = "none", adjust.method = correction):
  partial argument match of 'n' to 'number'
interactiontable: warning in topTable(eBayes(ebfit), n =
  length([email protected][[6]]), sort = "none", adjust.method = correction):
  partial argument match of 'sort' to 'sort.by'
* 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 installed files from 'inst/doc' ... NOTE
The following files should probably not be installed:
  'Annotationfile.tex'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ... [38s/38s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
cortestmatrices 9.017  0.221   9.303
repplots        8.217  0.645   9.129
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/coRNAi.Rcheck/00check.log'
for details.

coRNAi.Rcheck/00install.out:

* installing *source* package 'coRNAi' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'coRNAi.Rnw' 
** testing if installed package can be loaded
* DONE (coRNAi)

coRNAi.Rcheck/coRNAi-Ex.timings:

nameusersystemelapsed
BoxPlotShorth0.2680.0200.288
InteractGraph0.0220.0010.023
InteractLevelPlot0.4770.0310.510
MainFitPlot0.0470.0030.051
PlotHeatmap0.3810.0140.406
Pplot0.0150.0050.020
cellHTS2df0.2360.0310.266
cortestmatrices9.0170.2219.303
data2graph0.0060.0020.008
df2array0.2410.0270.272
df2fitmatrix0.7840.0290.817
df2lmFit0.4000.0180.419
estmodel0.6660.0130.682
faultyscreen0.1410.0120.153
interactiontable0.0710.0050.076
key0.0230.0050.029
repplots8.2170.6459.129
rlmmain0.3440.0430.392
screen1_raw0.0220.0110.033
screen2_raw0.1730.0200.194
signalplots0.2990.0280.330
tt2matrix0.0210.0050.026
updateDf0.2750.0250.363
weightDf0.2170.0120.230