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Package 349/609HostnameOS / ArchBUILDCHECKBUILD BIN
maDB 1.30.0
Johannes Rainer
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/maDB
Last Changed Rev: 70050 / Revision: 74773
Last Changed Date: 2012-10-01 15:16:24 -0700 (Mon, 01 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 N O T   S U P P O R T E D
perceval Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: maDB
Version: 1.30.0
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch maDB_1.30.0.tar.gz
StartedAt: 2013-03-25 00:16:28 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 00:17:54 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 85.7 seconds
RetCode: 0
Status:  OK 
CheckDir: maDB.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/maDB.Rcheck'
* using R version 2.15.3 (2013-03-01)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'maDB/DESCRIPTION' ... OK
* this is package 'maDB' version '1.30.0'
* 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 whether package 'maDB' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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
drawVolcanoPlot: warning in rgb(r = abs(plog)/redvalue, g =
  abs(M)/bluevalue, b = 0): partial argument match of 'r' to 'red'
drawVolcanoPlot: warning in rgb(r = abs(plog)/redvalue, g =
  abs(M)/bluevalue, b = 0): partial argument match of 'g' to 'green'
drawVolcanoPlot: warning in rgb(r = abs(plog)/redvalue, g =
  abs(M)/bluevalue, b = 0): partial argument match of 'b' to 'blue'
* 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 ... NOTE
S3 methods shown with full name in documentation object 'format.latex':
  'format.latex'

S3 methods shown with full name in documentation object 'mean.center':
  'mean.center'

The \usage entries for S3 methods should use the \method markup and not
their full name.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... NOTE
The following files should probably not be installed:
  'maDB.tex'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ... OK
* checking PDF version of manual ... OK

NOTE: There were 3 notes.
See
  '/Users/biocbuild/bbs-2.11-bioc/meat/maDB.Rcheck/00check.log'
for details.

maDB.Rcheck/00install.out:

* installing *source* package 'maDB' ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import 'show' when loading 'limma'
Creating a generic function for 'print' from package 'base' in package 'maDB'
Creating a generic function for 'sort' from package 'base' in package 'maDB'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import 'show' when loading 'limma'

* DONE (maDB)

maDB.Rcheck/maDB-Ex.timings:

nameusersystemelapsed
arrowProgress0.0000.0010.001
calculateSimilarity0.0030.0000.004
createJOINQuery000
getPathFromFile0.0010.0000.001
isDecimal000
mapply0.0140.0010.016
mean.center0.0000.0010.001
meanWithoutNA0.0000.0000.001
medianWithoutNA0.0010.0000.001
multiGrep0.0000.0000.001
progress0.0000.0010.001
replaceAll0.0010.0000.001
replaces0.0010.0000.001