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encoDnaseI 0.1-4
VJ Carey
Snapshot Date: 2010-04-02 12:27:31 -0700 (Fri, 02 Apr 2010)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/encoDnaseI
Last Changed Rev: 1023 / Revision: 1201
Last Changed Date: 2009-10-01 09:11:52 -0700 (Thu, 01 Oct 2009)
wilson2 Linux (openSUSE 11.1) / x86_64  OK [ WARNINGS ]
pitt Mac OS X Tiger (10.4.11) / i386  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  WARNINGS  OK 
Package: encoDnaseI
Version: 0.1-4
Command: /home/biocbuild/bbs-2.5-bioc/R/bin/R CMD check --no-vignettes encoDnaseI_0.1-4.tar.gz
StartedAt: 2010-04-02 13:55:11 -0700 (Fri, 02 Apr 2010)
EndedAt: 2010-04-02 13:58:45 -0700 (Fri, 02 Apr 2010)
EllapsedTime: 214.7 seconds
RetCode: 0
Status: WARNINGS
CheckDir: encoDnaseI.Rcheck
Warnings: 1

Command output

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.5-data-experiment/meat/encoDnaseI.Rcheck'
* using R version 2.10.1 (2009-12-14)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'encoDnaseI/DESCRIPTION' ... OK
* this is package 'encoDnaseI' version '0.1-4'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'encoDnaseI' 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 name space can be loaded with stated dependencies ... 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
ALICOR: no visible binding for global variable ‘rawCD4’
WRC: no visible binding for global variable ‘d19’
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented S4 methods:
  generic '[' and siglist 'hg18track,ANY,ANY,ANY'
  generic 'clipTrk' and siglist 'hg18track,numeric,numeric'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  /loc/home/biocbuild/bbs-2.5-data-experiment/meat/encoDnaseI.Rcheck/00check.log
for details

encoDnaseI.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package ‘encoDnaseI’ ...
** R
** data
** inst
** preparing package for lazy loading

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: GGBase
Loading required package: GSEABase
Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: graph
Loading required package: snpMatrix
Loading required package: survival
Loading required package: splines
Loading required package: RSQLite
Loading required package: DBI
Loading required package: RColorBrewer
Loading required package: Biostrings
Loading required package: IRanges

Attaching package: 'IRanges'


	The following object(s) are masked from package:Biobase :

	 updateObject 


	The following object(s) are masked from package:base :

	 Map,
	 cbind,
	 mapply,
	 order,
	 pmax,
	 pmax.int,
	 pmin,
	 pmin.int,
	 rbind,
	 rep.int,
	 table 


Attaching package: 'Biostrings'


	The following object(s) are masked from package:graph :

	 complement 

Loading required package: rpart
** help
*** installing help indices
** building package indices ...
* DONE (encoDnaseI)