Package: ggbio

Version: 1.0.4

Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings ggbio_1.0.4.tar.gz

StartedAt: 2012-03-24 00:41:12 -0700 (Sat, 24 Mar 2012)

EndedAt: 2012-03-24 00:44:37 -0700 (Sat, 24 Mar 2012)

EllapsedTime: 204.6 seconds

RetCode: 0

Status:  OK

CheckDir: ggbio.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/ggbio.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 ‘ggbio/DESCRIPTION’ ... OK
* this is package ‘ggbio’ version ‘1.0.4’
* 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 ‘ggbio’ 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 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
plotMismatchSum: no visible binding for global variable ‘depth’
plotMismatchSum: no visible binding for global variable ‘sts’
plotMismatchSum: no visible binding for global variable ‘eds’
plotMismatchSum: no visible binding for global variable ‘read’
plotOverview: no visible binding for global variable ‘gieStain’
plotRangesLinkedToData: no visible global function definition for
  ‘melt’
plotSingleChrom: no visible binding for global variable ‘x1’
plotSingleChrom: no visible binding for global variable ‘x2’
tracks : <anonymous>: no visible global function definition for ‘unit’
* 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 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

* installing *source* package ‘ggbio’ ...
** R
** inst
** preparing package for lazy loading
Creating a new generic function for ‘rescale’ in package ‘ggbio’
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘intro.Rnw’ 
** testing if installed package can be loaded

* DONE (ggbio)

name	user	system	elapsed
geom_chevron	0	0	0
geom_hotregion	3.212	0.040	3.331
plotFragLength	0.000	0.004	0.000
plotGrandLinear	0	0	0
plotMismatchSum	0	0	0
plotOverview	6.293	0.044	6.399
plotRangesLinkedToData	0	0	0
plotSingleChrom	1.104	0.004	1.109
plotSpliceSum	0.000	0.000	0.001
qplot-method	0.000	0.000	0.001
rescale-method	0.000	0.000	0.001
tracks	0	0	0