Package: pickgene

Version: 1.9.0

Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check pickgene_1.9.0.tar.gz

RetCode: 0

Time: 43.5 seconds

Status: OK

CheckDir: pickgene.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory 'D:/biocbld/bbs-2.1-bioc/meat/pickgene.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-06-03 r41797)
* checking for file 'pickgene/DESCRIPTION' ... OK
* this is package 'pickgene' version '1.9.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'pickgene' can be installed ... 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 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
lod.plot: possible error in oddsplot(exp(data[[x]]), exp(data[[y]]),
  theta, col = col, xlab = xlab, ylab = ylab, chip = ""): unused
  argument(s) (chip = "")
nloglik: no visible binding for global variable '.fit.xx'
nloglik: no visible binding for global variable '.fit.yy'
nploglik: no visible binding for global variable '.fit.xx'
nploglik: no visible binding for global variable '.fit.yy'
nploglik: no visible binding for global variable '.fit.zz'
s.check1: no visible global function definition for 'lod'
s.marg: no visible binding for global variable 'x'
s.marg: no visible binding for global variable 'x'
shrinkplot: no visible global function definition for 's.fits'
shrinkplot: no visible binding for global variable 'lims'
shrinkplot: no visible binding for global variable 'lims'
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating pickgene-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating pickgene-manual.tex ... OK
* checking pickgene-manual.tex ... OK

installing R.css in D:/biocbld/bbs-2.1-bioc/meat/pickgene.Rcheck


---------- Making package pickgene ------------
  adding build stamp to DESCRIPTION
  installing R files
  installing inst files
  installing man source files
  installing indices
  installing help
 >>> Building/Updating help pages for package 'pickgene'
     Formats: text html latex example chm 
  Simulation.pickgene               text    html    latex   example chm
  em.ggb                            text    html    latex   example chm
  model.pickgene                    text    html    latex   example chm
  oddsplot                          text    html    latex   example chm
  pickgene-internal                 text    html    latex           chm
  pickgene                          text    html    latex   example chm
  robustscale                       text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling d:\biocbld\bbs-2.1-bioc\meat\pickgene.Rcheck\00_pkg_src\pickgene\chm\pickgene.chm


Compile time: 0 minutes, 0 seconds
8	Topics
16	Local links
0	Internet links
1	Graphic


Created d:\biocbld\bbs-2.1-bioc\meat\pickgene.Rcheck\00_pkg_src\pickgene\chm\pickgene.chm, 30,637 bytes
Compression decreased file by 11,656 bytes.
  preparing package pickgene for lazy loading
Loading required package: MASS
  adding MD5 sums

* DONE (pickgene)