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Package 328/516HostnameOS / ArchBUILDCHECKBUILD BIN
MSnbase 1.2.0
Laurent Gatto
Snapshot Date: 2012-01-08 18:22:44 -0800 (Sun, 08 Jan 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/MSnbase
Last Changed Rev: 59920 / Revision: 61898
Last Changed Date: 2011-10-31 15:59:03 -0700 (Mon, 31 Oct 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 SP1 (64-bit) / x64  OK [ OK ] OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  ERROR  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: MSnbase
Version: 1.2.0
Command: D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch MSnbase_1.2.0.tar.gz
StartedAt: 2012-01-09 04:25:49 -0800 (Mon, 09 Jan 2012)
EndedAt: 2012-01-09 04:29:48 -0800 (Mon, 09 Jan 2012)
EllapsedTime: 238.8 seconds
RetCode: 0
Status:  OK  
CheckDir: MSnbase.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/MSnbase.Rcheck'
* using R version 2.14.1 (2011-12-22)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MSnbase/DESCRIPTION' ... OK
* this is package 'MSnbase' version '1.2.0'
* 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 'MSnbase' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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 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
readMSnSet: no visible binding for global variable 'stringAsFactors'
* 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 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
Creating a generic function for 'plot' from package 'graphics' in package 'MSnbase'
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   '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-class0.340.000.41
MSnProcess-class000
MSnSet-class0.480.000.48
NAnnotatedDataFrame-class0.020.000.02
ReporterIons-class0.010.000.01
TMT60.020.000.02
clean-methods0.270.000.26
combineFeatures0.450.000.46
extractPrecSpectra-methods0.110.000.11
extractSpectra-methods0.140.000.14
fillUp000
formatRt000
iTRAQ40.010.000.01
itraqdata0.080.000.08
normalise-methods3.350.033.56
pSet-class000
plot-methods3.860.003.86
plot2d-methods2.950.002.96
plotDensity-methods2.890.002.89
plotMzDelta-methods33.78 1.4735.26
precSelection0.060.000.06
purityCorrect-methods0.580.000.58
quantify-methods0.60.00.6
readIspyData000
readMSData0.140.000.14
readMSnSet000
readMgfData000
readMzXMLData0.650.030.73
removePeaks-methods0.240.020.25
removeReporters-methods2.530.002.53
trimMz-methods0.120.000.13
writeMgfData-methods000