Package: Category

Version: 2.18.0

Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch Category_2.18.0.tar.gz

StartedAt: 2011-10-20 13:31:56 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 13:35:13 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 196.5 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: Category.Rcheck

Warnings: 1

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/Category.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Category/DESCRIPTION' ... OK
* this is package 'Category' version '2.18.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Category' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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 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 ... 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 ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
   Category.Rnw
   ChromBand.Rnw

* 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
  'D:/biocbld/bbs-2.8-bioc/meat/Category.Rcheck/00check.log'
for details

* installing *source* package 'Category' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Category)

name	user	system	elapsed
ChrBandTree-class	23.88	0.08	25.67
ChrMapHyperGParams-class	0	0	0
ChrMapHyperGResult-class	0	0	0
ChrMapLinearMParams-class	0	0	0
ChrMapLinearMResult-class	0	0	0
DatPkg-class	0.08	0.00	0.08
HyperGResult-accessors	0.89	0.08	18.72
LinearMParams-class	0	0	0
LinearMResult-class	0	0	0
LinearMResultBase-class	0	0	0
MAPAmat	13.61	0.02	13.67
applyByCategory	0.02	0.00	0.02
cateGOryMatrix	0.32	0.00	9.73
cb_parse_band_Hs	0	0	0
cb_parse_band_Mm	0	0	0
findAMstats	0	0	0
getPathNames	0.14	0.02	0.16
gseattperm	4.36	0.07	4.91
makeChrBandGraph	11.82	0.01	11.83
makeEBcontr	0.42	0.00	0.42
probes2MAP	0.25	0.00	0.25
probes2Path	0.08	0.02	0.20
ttperm	0.03	0.00	0.03