Package: ddCt

Version: 1.13.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch ddCt_1.13.0.tar.gz

StartedAt: 2013-03-24 04:12:05 -0700 (Sun, 24 Mar 2013)

EndedAt: 2013-03-24 04:13:14 -0700 (Sun, 24 Mar 2013)

EllapsedTime: 68.9 seconds

RetCode: 0

Status:  OK

CheckDir: ddCt.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/ddCt.Rcheck'
* using R version 3.0.0 beta (2013-03-21 r62346)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'ddCt/DESCRIPTION' ... OK
* this is package 'ddCt' version '1.13.0'
* 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 'ddCt' can be installed ... [6s/7s] 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 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
ddCtReport: warning in write.htmltable(cbind(rownames(lv), lv), title =
  "Level", file = file.path(html.path, "level")): partial argument
  match of 'file' to 'filename'
ddCtReport: warning in write.htmltable(cbind(rownames(Ct), Ct), title =
  "Ct", file = file.path(html.path, "Ct")): partial argument match of
  'file' to 'filename'
ddCtReport: warning in write.htmltable(cbind(rownames(dCtValues),
  dCtValues), title = "dCt", file = file.path(html.path, "dCt")):
  partial argument match of 'file' to 'filename'
ddCtReport: warning in write.htmltable(cbind(rownames(ddCtValues),
  ddCtValues), title = "ddCt", file = file.path(html.path, "ddCt")):
  partial argument match of 'file' to 'filename'
* 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 installed files from 'inst/doc' ... OK
* checking examples ... [3s/3s] OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'unit.R' [2s/2s]
 [3s/3s] 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

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/ddCt.Rcheck/00check.log'
for details.

* installing *source* package 'ddCt' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'summary' from package 'base' in package 'ddCt'
** help
*** installing help indices
** building package indices
** installing vignettes
   'RT-PCR-Script-ddCt.Rnw' 
   'rtPCR-usage.Rnw' 
   'rtPCR.Rnw' 
** testing if installed package can be loaded
* DONE (ddCt)

name	user	system	elapsed
InputReader-class	0.007	0.001	0.009
SDMFrame-class	0.101	0.007	0.109
SDMFrame	0.034	0.003	0.037
barploterrbar	0.018	0.001	0.020
ddCtExpression-class	0.242	0.007	0.250
ddCtExpression-methods	0.087	0.007	0.094
elistWrite-methods	0.098	0.003	0.103
errBarchartParameter-class	0.009	0.001	0.010
getDir	0.008	0.000	0.009
replaceVectorByEquality	0.007	0.001	0.008