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Package 217/419HostnameOS / ArchBUILDCHECKBUILD BIN
KCsmart 2.8.0
Jorma de Ronde
Snapshot Date: 2011-03-30 23:22:56 -0700 (Wed, 30 Mar 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_7/madman/Rpacks/KCsmart
Last Changed Rev: 50293 / Revision: 54281
Last Changed Date: 2010-10-17 22:34:23 -0700 (Sun, 17 Oct 2010)
lamb2 Linux (openSUSE 11.2) / 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: KCsmart
Version: 2.8.0
Command: /Library/Frameworks/R.framework/Versions/2.12/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch KCsmart_2.8.0.tar.gz
StartedAt: 2011-03-31 06:25:21 -0700 (Thu, 31 Mar 2011)
EndedAt: 2011-03-31 06:37:08 -0700 (Thu, 31 Mar 2011)
EllapsedTime: 707.3 seconds
RetCode: 0
Status:  OK 
CheckDir: KCsmart.Rcheck
Warnings: 0

Command output

* using log directory ‘/Users/biocbuild/bbs-2.7-bioc/meat/KCsmart.Rcheck’
* using R version 2.12.2 Patched (2011-02-25 r54591)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘KCsmart/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘KCsmart’ version ‘2.8.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘KCsmart’ can be installed ... 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 ... NOTE
prepare_Rd: calcSpm.Rd:49-50: Dropping empty section \note
prepare_Rd: calcSpm.Rd:47: Dropping empty section \references
prepare_Rd: calcSpmCollection.Rd:51-52: Dropping empty section \note
prepare_Rd: calcSpmCollection.Rd:49: Dropping empty section \references
prepare_Rd: compareSpmCollection.Rd:28-29: Dropping empty section \note
prepare_Rd: compareSpmCollection.Rd:26: Dropping empty section \references
prepare_Rd: getSigRegionsCompKC.Rd:30-31: Dropping empty section \note
prepare_Rd: getSigRegionsCompKC.Rd:28: Dropping empty section \references
prepare_Rd: getSigSegments.Rd:29-30: Dropping empty section \note
prepare_Rd: hsSampleData.Rd:12-13: Dropping empty section \references
prepare_Rd: idPoints.Rd:29-30: Dropping empty section \note
prepare_Rd: plot.Rd:39-40: Dropping empty section \details
prepare_Rd: plot.Rd:51-52: Dropping empty section \note
prepare_Rd: plotScaleSpace.Rd:25-26: Dropping empty section \note
prepare_Rd: write.table.Rd:73-75: Dropping empty section \value
prepare_Rd: write.table.Rd:77-78: Dropping empty section \note
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

KCsmart.Rcheck/00install.out:

* installing *source* package ‘KCsmart’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: multtest
Loading required package: Biobase

Welcome to Bioconductor

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

Loading required package: splines
Creating a new generic function for "sort" in "KCsmart"
Creating a new generic function for "unlist" in "KCsmart"
Creating a new generic function for "write.table" in "KCsmart"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (KCsmart)

KCsmart.Rcheck/KCsmart-Ex.timings:

nameusersystemelapsed
KCsmart-package102.408 44.288152.251
calcSpm 7.531 3.14010.853
calcSpmCollection 70.260 31.012105.737
compKc-class0.0020.0010.002
compKcSigRegions-class0.0010.0000.002
compareSpmCollection 73.287 34.065111.803
findSigLevelFdr15.810 7.21324.183
findSigLevelTrad15.249 6.88325.325
getSigRegionsCompKC 70.200 31.185107.731
getSigSegments14.204 6.10521.303
idPoints0.0420.0030.045
plot15.255 6.20321.869
plotScaleSpace31.65013.27445.752
samplePointMatrix-class0.0020.0000.003
sigSegments-class0.0010.0000.002
spmCollection-class0.0010.0010.001
write.table14.745 6.37022.074