Package: affypdnn

Version: 1.7.0

Command: /loc/biocbuild/1.9d/R/bin/R CMD check affypdnn_1.7.0.tar.gz

RetCode: 0

Time: 570.1 seconds

Status: WARNINGS

CheckDir: affypdnn.Rcheck

Warnings: 1

* checking for working latex ... OK
* using log directory '/extra/loc/biocbuild/1.9d/Rpacks/affypdnn.Rcheck'
* using R version 2.4.0 alpha (2006-09-10 r39242)
* checking for file 'affypdnn/DESCRIPTION' ... OK
* this is package 'affypdnn' version '1.7.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'affypdnn' 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 ... WARNING
Undocumented arguments in documentation object 'transform.ProbeSet'
  _data
Documented arguments not in \usage in documentation object 'transform.ProbeSet':
  `_data`

Functions with \usage entries need to have the appropriate \alias entries,
and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* creating affypdnn-Ex.R ... OK
* checking examples ... OK
* creating affypdnn-manual.tex ... OK
* checking affypdnn-manual.tex ... OK

WARNING: There was 1 warning, see
  /extra/loc/biocbuild/1.9d/Rpacks/affypdnn.Rcheck/00check.log
for details

* Installing *source* package 'affypdnn' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: affy

Loading required package: Biobase

Loading required package: tools


Welcome to Bioconductor

    Vignettes contain introductory material. To view, type
    'openVignette()' or start with 'help(Biobase)'. For details
    on reading vignettes, see the openVignette help page.

Loading required package: affyio

Loading required package: affydata

Loading required package: hgu95av2probe

Loading required package: matchprobes

** help
 >>> Building/Updating help pages for package 'affypdnn'
     Formats: text html latex example 
  chiptype.pdnn.params              text    html    latex   example
  expressopdnn                      text    html    latex   example
  find.params.pdnn                  text    html    latex   example
  generateExprVal.method.pdnn       text    html    latex   example
  matplotProbesPDNN                 text    html    latex   example
  pdnn.params.chiptype              text    html    latex   example
  transform.ProbeSet                text    html    latex   example
** building package indices ...
* DONE (affypdnn)