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Package 85/514HostnameOS / ArchBUILDCHECKBUILD BIN
cghMCR 1.12.0
J. Zhang
Snapshot Date: 2012-03-23 18:21:46 -0700 (Fri, 23 Mar 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/cghMCR
Last Changed Rev: 59920 / Revision: 64395
Last Changed Date: 2011-10-31 15:59:03 -0700 (Mon, 31 Oct 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: cghMCR
Version: 1.12.0
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings cghMCR_1.12.0.tar.gz
StartedAt: 2012-03-23 23:39:57 -0700 (Fri, 23 Mar 2012)
EndedAt: 2012-03-23 23:42:02 -0700 (Fri, 23 Mar 2012)
EllapsedTime: 124.5 seconds
RetCode: 0
Status:  OK 
CheckDir: cghMCR.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/cghMCR.Rcheck’
* using R version 2.14.2 (2012-02-29)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cghMCR/DESCRIPTION’ ... OK
* this is package ‘cghMCR’ version ‘1.12.0’
* 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 ‘cghMCR’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 98.1Mb
  sub-directories of 1Mb or more:
    sampleData  97.1Mb
* 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 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 ... NOTE
prepare_Rd: SGOL-class.Rd:49: Dropping empty section \note
prepare_Rd: cghMCR-class.Rd:56: Dropping empty section \references
prepare_Rd: mergeMCRProbes.Rd:28: Dropping empty section \references
* 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 'plot.DNAcopy':
  ‘plot.DNAcopy’

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 examples ... 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

cghMCR.Rcheck/00install.out:

* installing *source* package ‘cghMCR’ ...
** R
** data
** inst
** preparing package for lazy loading
Warning in library.dynam("CNTools", package = "CNTools") :
  use of library.dynam() without specifying both 'package' and 'lib.loc' is deprecated
Creating a generic function for ‘print’ from package ‘base’ in package ‘cghMCR’
Creating a generic function for ‘colnames’ from package ‘base’ in package ‘cghMCR’
Creating a generic function for ‘rownames’ from package ‘base’ in package ‘cghMCR’
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘findMCR.Rnw’ 
** testing if installed package can be loaded
Warning in library.dynam("CNTools", package = "CNTools") :
  use of library.dynam() without specifying both 'package' and 'lib.loc' is deprecated

* DONE (cghMCR)

cghMCR.Rcheck/cghMCR-Ex.timings:

nameusersystemelapsed
SGOL-class0.0000.0000.001
cghMCR-class0.0920.0040.100
cghMCR0.0440.0040.048
mergeMCRProbes4.3480.0284.377
plot.DNAcopy000