BioC 2.14: CHECK report for hypergraph on petty

Package: hypergraph

Version: 1.36.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch hypergraph_1.36.0.tar.gz

StartedAt: 2014-10-07 22:32:51 -0700 (Tue, 07 Oct 2014)

EndedAt: 2014-10-07 22:33:46 -0700 (Tue, 07 Oct 2014)

EllapsedTime: 54.6 seconds

RetCode: 0

Status:  OK

CheckDir: hypergraph.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch hypergraph_1.36.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-2.14-bioc/meat/hypergraph.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘hypergraph/DESCRIPTION’ ... OK
* this is package ‘hypergraph’ version ‘1.36.0’
* 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 ‘hypergraph’ can be installed ... [4s/5s] OK
* checking installed package size ... OK
* 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 ... NOTE
'library' or 'require' call to ‘methods’ which was already attached by Depends.
  Please remove these calls from your code.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* 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: kCores.Rd:29: Dropping empty section \seealso
prepare_Rd: vCover.Rd:32: Dropping empty section \seealso
* 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 files in ‘vignettes’ ... OK
* checking examples ... [2s/2s] OK
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  ‘/Users/biocbuild/bbs-2.14-bioc/meat/hypergraph.Rcheck/00check.log’
for details.

* installing *source* package ‘hypergraph’ ...
** R
** inst
** preparing package for lazy loading
Creating a new generic function for ‘head’ in package ‘hypergraph’
Creating a new generic function for ‘tail’ in package ‘hypergraph’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (hypergraph)

name	user	system	elapsed
DirectedHyperedge-class	0.002	0.000	0.002
Hyperedge-class	0.002	0.001	0.002
Hypergraph-class	0.004	0.000	0.004
kCores	0.033	0.005	0.038
l2hel	0.002	0.001	0.003
vCover	0.024	0.001	0.025