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Package 394/609HostnameOS / ArchBUILDCHECKBUILD BIN
MSnbase 1.6.2
Laurent Gatto
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/MSnbase
Last Changed Rev: 72541 / Revision: 74773
Last Changed Date: 2013-01-15 10:43:56 -0800 (Tue, 15 Jan 2013)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: MSnbase
Version: 1.6.2
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch MSnbase_1.6.2.tar.gz
StartedAt: 2013-03-25 00:32:57 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 00:37:51 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 294.0 seconds
RetCode: 0
Status:  OK 
CheckDir: MSnbase.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/MSnbase.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 'MSnbase/DESCRIPTION' ... OK
* this is package 'MSnbase' version '1.6.2'
* 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 '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 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 ... 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' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                      user system elapsed
plotMzDelta-methods 19.387  5.267  25.249
* 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
** help
*** installing help indices
** building package indices
** installing vignettes
   'MSnbase-demo.Rnw' 
   'MSnbase-development.Rnw' 
   'MSnbase-io.Rnw' 
** testing if installed package can be loaded

* DONE (MSnbase)

MSnbase.Rcheck/MSnbase-Ex.timings:

nameusersystemelapsed
MSnExp-class0.6370.0370.678
MSnProcess-class0.0010.0010.001
MSnSet-class1.2300.0961.347
NAnnotatedDataFrame-class0.0260.0010.027
ReporterIons-class0.0160.0010.017
TMT60.0150.0000.015
clean-methods1.8680.0391.933
combineFeatures0.8310.0440.880
extractPrecSpectra-methods0.3380.0220.366
fillUp0.0080.0000.009
formatRt0.0010.0000.001
getVariableName0.0020.0000.002
iTRAQ40.0170.0010.018
itraqdata0.0680.0270.095
nQuants4.7240.0894.860
normalise-methods4.4770.0854.584
pSet-class0.0000.0000.001
plot-methods1.6670.1962.004
plot2d-methods1.2650.1341.412
plotDensity-methods1.0950.1271.237
plotMzDelta-methods19.387 5.26725.249
plotNA-methods4.8610.0844.995
precSelection0.0680.0240.093
purityCorrect-methods4.3580.0854.465
quantify-methods4.5460.0894.701
readIspyData000
readMSData0.3190.0170.353
readMSnSet0.0000.0000.001
readMgfData0.0000.0000.001
readMzTabData000
removePeaks-methods1.7570.1021.876
removeReporters-methods0.8990.0820.983
trimMz-methods0.1560.0150.172
writeMgfData-methods0.0010.0000.001
writeMzTabData0.0000.0000.001