BioC 2.13: CHECK report for SigFuge on zin1

Package: SigFuge

Version: 1.0.2

Command: /home/biocbuild/bbs-2.13-bioc/R/bin/R CMD check --no-vignettes --timings SigFuge_1.0.2.tar.gz

StartedAt: 2014-04-05 03:57:38 -0700 (Sat, 05 Apr 2014)

EndedAt: 2014-04-05 03:59:55 -0700 (Sat, 05 Apr 2014)

EllapsedTime: 136.4 seconds

RetCode: 0

Status:  OK

CheckDir: SigFuge.Rcheck

Warnings: 0

* using log directory ‘/home/biocbuild/bbs-2.13-bioc/meat/SigFuge.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SigFuge/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SigFuge’ version ‘1.0.2’
* 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 ‘SigFuge’ can be installed ... [9s/9s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ 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 ... NOTE
SFfigure: no visible binding for global variable ‘base’
SFfigure: no visible binding for global variable ‘s’
SFfigure: no visible binding for global variable ‘e’
SFfigure: no visible binding for global variable ‘cluster’
SFfigure: no visible binding for global variable ‘x’
SFfigure: no visible binding for global variable ‘y1’
SFfigure: no visible binding for global variable ‘label’
SFfigure: no visible binding for global variable ‘value’
SFfigure: no visible binding for global variable ‘Clusters’
SFfigure: no visible binding for global variable ‘y2’
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [44s/44s] OK
Examples with CPU or elapsed time > 5s
           user system elapsed
SFfigure 25.673  0.076  25.805
SFpval   11.753  0.056  11.831
* 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  ‘/home/biocbuild/bbs-2.13-bioc/meat/SigFuge.Rcheck/00check.log’
for details.

* installing *source* package ‘SigFuge’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (SigFuge)

name	user	system	elapsed
SFfigure	25.673	0.076	25.805
SFlabels	1.432	0.008	1.446
SFnormalize	0.18	0.00	0.18
SFpval	11.753	0.056	11.831