Package: reb

Version: 1.5.0

Command: /loc/biocbuild/1.9d/R/bin/R CMD check reb_1.5.0.tar.gz

RetCode: 1

Time: 156.9 seconds

Status: ERROR

CheckDir: reb.Rcheck

Warnings: NA

* checking for working latex ... OK
* using log directory '/loc/biocbuild/1.9d/Rpacks/reb.Rcheck'
* using R version 2.4.0 Under development (unstable) (2006-06-04 r38279)
* checking for file 'reb/DESCRIPTION' ... OK
* this is package 'reb' version '1.5.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'reb' 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 R files for library.dynam ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking Rd files ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* creating reb-Ex.R ... OK
* checking examples ... ERROR
Running examples in reb-Ex.R failed.
The error most likely occurred in:

> ### * mcr.eset
> 
> flush(stderr()); flush(stdout())
> 
> ### Name: mcr.eset
> ### Title: Example exprSet and chromLocation objects
> ### Aliases: mcr.eset
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(mcr.eset)
> 
> str(mcr.eset)
Error in FUN(X[[8]], ...) : no slot of name ".__classVersion__" for this object of class "exprSet"
Execution halted

* Installing *source* package 'reb' ...
** libs
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include   -fPIC  -g -O2 -std=gnu99 -Wall -c movbin.c -o movbin.o
movbin.c: In function `bcount':
movbin.c:37: warning: suggest parentheses around comparison in operand of &
movbin.c: In function `bscore':
movbin.c:48: warning: implicit declaration of function `sqrt'
movbin.c: In function `mean':
movbin.c:63: warning: suggest parentheses around comparison in operand of &
movbin.c: In function `mspan_mov_binom_mx':
movbin.c:128: warning: unused variable `im_mx'
movbin.c: In function `mspan_mov_binom':
movbin.c:145: warning: unused variable `r'
movbin.c:145: warning: unused variable `c'
movbin.c: In function `main':
movbin.c:158: warning: unused variable `data'
movbin.c:160: warning: unused variable `gx2'
movbin.c:161: warning: unused variable `im_vec'
movbin.c:161: warning: unused variable `im_mx'
movbin.c:162: warning: unused variable `sum_vec'
movbin.c:162: warning: unused variable `sum_mx'
movbin.c:163: warning: unused variable `range'
movbin.c:166: warning: unused variable `rlen'
movbin.c:168: warning: unused variable `nr'
gcc -G -L/usr/local/lib -o reb.so movbin.o   
** R
** data
** inst
** help
 >>> Building/Updating help pages for package 'reb'
     Formats: text html latex example 
  Hs.arms                           text    html    latex
  absMax                            text    html    latex   example
  buildChromCytoband                text    html    latex   example
  buildChromMap                     text    html    latex   example
  cset2band                         text    html    latex   example
  fromRevIsh                        text    html    latex   example
  isAbnormal                        text    html    latex   example
  mcr.eset                          text    html    latex   example
  movbin                            text    html    latex   example
  naMean                            text    html    latex   example
  regmap                            text    html    latex   example
  revish                            text    html    latex   example
  rmAmbigMappings                   text    html    latex   example
  smoothByRegion                    text    html    latex   example
  summarizeByRegion                 text    html    latex   example
  t.binom.test                      text    html    latex   example
  writeGFF3                         text    html    latex   example
** building package indices ...
* DONE (reb)