BioC experimental data: CHECK report for phastCons100way.UCSC.hg19 on zin1

Package: phastCons100way.UCSC.hg19

Version: 1.1.0

Command: /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings phastCons100way.UCSC.hg19_1.1.0.tar.gz

StartedAt: 2014-04-16 10:24:58 -0700 (Wed, 16 Apr 2014)

EndedAt: 2014-04-16 10:32:47 -0700 (Wed, 16 Apr 2014)

EllapsedTime: 469.4 seconds

RetCode: 0

Status:  OK

CheckDir: phastCons100way.UCSC.hg19.Rcheck

Warnings: 0

* using log directory ‘/home/biocbuild/bbs-3.0-data-experiment/meat/phastCons100way.UCSC.hg19.Rcheck’
* using R version 3.1.0 (2014-04-10)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘phastCons100way.UCSC.hg19/DESCRIPTION’ ... OK
* this is package ‘phastCons100way.UCSC.hg19’ version ‘1.1.0’
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘phastCons100way.UCSC.hg19’ can be installed ... [36s/39s] OK
* checking installed package size ... NOTE
  installed size is 229.9Mb
  sub-directories of 1Mb or more:
    extdata  229.8Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 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 ... 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 ... [24s/25s] OK
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  ‘/home/biocbuild/bbs-3.0-data-experiment/meat/phastCons100way.UCSC.hg19.Rcheck/00check.log’
for details.

* installing *source* package ‘phastCons100way.UCSC.hg19’ ...
** R
** inst
** preparing package for lazy loading
Note: the specification for S3 class “AsIs” in package ‘RJSONIO’ seems equivalent to one from package ‘BiocGenerics’: not turning on duplicate class definitions for this class.
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
Note: the specification for S3 class “AsIs” in package ‘RJSONIO’ seems equivalent to one from package ‘BiocGenerics’: not turning on duplicate class definitions for this class.
* DONE (phastCons100way.UCSC.hg19)

name	user	system	elapsed
phastCons100way.UCSC.hg19-package	0.352	0.016	0.378