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Package 298/462HostnameOS / ArchBUILDCHECKBUILD BIN
MSnbase 1.1.7
Laurent Gatto
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/MSnbase
Last Changed Rev: 55356 / Revision: 55359
Last Changed Date: 2011-05-09 04:24:06 -0700 (Mon, 09 May 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: MSnbase
Version: 1.1.7
Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch MSnbase_1.1.7.tar.gz
StartedAt: 2011-05-09 15:52:28 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 15:57:39 -0700 (Mon, 09 May 2011)
EllapsedTime: 310.6 seconds
RetCode: 0
Status:  OK 
CheckDir: MSnbase.Rcheck
Warnings: 0

Command output

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/MSnbase.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-04-24 r55634)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MSnbase/DESCRIPTION’ ... OK
* this is package ‘MSnbase’ version ‘1.1.7’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘MSnbase’ 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 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 ... 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 sizes of PDF files under ‘inst/doc’ ... NOTE
  ‘qpdf’ made some significant size reductions:
     compacted ‘MSnbase-demo.pdf’ from 696Kb to 260Kb
  consider running tools::compactPDF() on these files
* checking examples ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘test-all.R’
 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

MSnbase.Rcheck/00install.out:

* installing *source* package ‘MSnbase’ ...
** R
** data
**  moving datasets to lazyload DB
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Loading required package: reshape
Loading required package: plyr

Attaching package: ‘reshape’

The following object(s) are masked from ‘package:plyr’:

    rename, round_any

Loading required package: grid
Loading required package: proto
Creating a new generic function for "plot" in "MSnbase"
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘MSnbase-demo.Rnw’ 
   ‘MSnbase-development.Rnw’ 
** testing if installed package can be loaded

* DONE (MSnbase)

MSnbase.Rcheck/MSnbase-Ex.timings:

nameusersystemelapsed
MSnExp-class2.3160.1622.529
MSnProcess-class0.0030.0010.004
MSnSet-class7.5300.1997.831
NAnnotatedDataFrame-class0.0400.0010.041
ReporterIons-class0.0240.0010.025
TMT60.0250.0010.025
clean-methods10.782 0.16811.209
combineFeatures7.1910.1977.703
extractPrecSpectra-methods1.8030.1242.071
extractSpectra-methods1.6000.0971.719
formatRt0.0000.0000.001
iTRAQ40.0240.0010.024
pSet-class0.0020.0010.003
plot-methods12.130 0.46513.771
plot2d-methods4.1270.1765.069
purityCorrect-methods7.1330.1787.630
quantify-methods7.1340.1987.568
readIspyData000
readMzXMLData1.7070.1272.063
removePeaks-methods11.014 0.14611.476
trimMz-methods1.8270.1031.958