Package: nudge

Version: 1.5.0

Command: /loc/biocbuild/2.0d/R/bin/R CMD check nudge_1.5.0.tar.gz

RetCode: 1

Time: 259.5 seconds

Status: ERROR

CheckDir: nudge.Rcheck

Warnings: NA

* checking for working latex ... OK
* using log directory '/loc/biocbuild/2.0d/Rpacks/nudge.Rcheck'
* using R version 2.5.0 Under development (unstable) (2006-12-05 r40126)
* checking for file 'nudge/DESCRIPTION' ... OK
* this is package 'nudge' version '1.5.0'
* checking package dependencies ... WARNING
'library' or 'require' calls not declared from:
  modreg
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking if this is a source package ... OK
* checking whether package 'nudge' can be installed ... 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 syntax errors ... OK
* checking R files for non-ASCII characters ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... 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 cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating nudge-Ex.R ... OK
* checking examples ... ERROR
Running examples in 'nudge-Ex.R' failed.
The error most likely occurred in:

> ### * norm2c
> 
> flush(stderr()); flush(stdout())
> 
> ### Name: norm2c
> ### Title: Function for normalizing the mean of average-across-replicates
> ###   log ratio differences
> ### Aliases: norm2c
> ### Keywords: loess
> 
> ### ** Examples
> 
> apo<-read.csv("http://www.stat.berkeley.edu/users/terry/zarray/Data/ApoA1/rg_a1ko_morph.txt",
+ header=TRUE)
Warning: cannot open: HTTP status was '0 (null)'
Error in file(file, "r") : unable to open connection
Execution halted

* Installing *source* package 'nudge' ...
** R
** data
** inst
** help
 >>> Building/Updating help pages for package 'nudge'
     Formats: text html latex example 
  hiv                               text    html    latex
  like                              text    html    latex
  neg.contr                         text    html    latex
  norm1a                            text    html    latex   example
  norm1b                            text    html    latex   example
  norm1c                            text    html    latex   example
  norm1d                            text    html    latex   example
  norm2c                            text    html    latex   example
  norm2d                            text    html    latex   example
  nudge1                            text    html    latex   example
  nudge2                            text    html    latex   example
  pos.contr                         text    html    latex
** building package indices ...
* DONE (nudge)