Package: ecolitk

Version: 1.25.0

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch ecolitk_1.25.0.tar.gz

StartedAt: 2011-05-09 14:18:48 -0700 (Mon, 09 May 2011)

EndedAt: 2011-05-09 14:19:31 -0700 (Mon, 09 May 2011)

EllapsedTime: 43.7 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: ecolitk.Rcheck

Warnings: 1

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/ecolitk.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-04-24 r55634)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ecolitk/DESCRIPTION’ ... OK
* this is package ‘ecolitk’ version ‘1.25.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘ecolitk’ 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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
.buildGENEPRODFUN: possible error in strsplit(line, "\t", extended =
  TRUE): unused argument(s) (extended = TRUE)
* checking Rd files ... NOTE
prepare_Rd: multiFun.Rd:16-18: Dropping empty section \details
prepare_Rd: polar2xy.Rd:28-33: Dropping empty section \value
prepare_Rd: polygonChrom.Rd:59: Dropping empty section \seealso
prepare_Rd: wstringapply.Rd:24-25: Dropping empty section \examples
* 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 ... WARNING
  Warning: large data file(s) saved inefficiently:
                         size ASCII compress
  ecoli.m52.genome.rda  1.3Mb  TRUE     gzip
  ecoligenomeCHRLOC.rda 122Kb  TRUE     gzip
* checking sizes of PDF files under ‘inst/doc’ ... NOTE
  ‘qpdf’ made some significant size reductions:
     compacted ‘ecolitk.pdf’ from 338Kb to 160Kb
  consider running tools::compactPDF() on these files
* checking examples ... OK
* checking for unstated dependencies in vignettes ... NOTE
‘library’ or ‘require’ call not declared from: ‘affy’
* 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

WARNING: There was 1 warning, see
  ‘/Users/biocbuild/bbs-2.9-bioc/meat/ecolitk.Rcheck/00check.log’
for details

* installing *source* package ‘ecolitk’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘ecolitk.Rnw’ 
** testing if installed package can be loaded

* DONE (ecolitk)

name	user	system	elapsed
ecoli.data	0.769	0.021	0.801
ecoligenome.operon	0.144	0.005	0.149
linkedmultiget	0.301	0.007	0.324
multiFun	0	0	0
pointsCircle	0.062	0.005	0.067
polar2xy	0.004	0.000	0.004
polygonChrom	0.259	0.005	0.266