Package: y2hStat

Version: 1.3.12

Command: /loc/biocbuild/1.9d/R/bin/R CMD check y2hStat_1.3.12.tar.gz

RetCode: None

Time: 2400.0 seconds

Status: TIMEOUT

CheckDir: y2hStat.Rcheck

Warnings: NA

* checking for working latex ... OK
* using log directory '/loc/biocbuild/1.9d/Rpacks/y2hStat.Rcheck'
* using R version 2.4.0 Under development (unstable) (2006-07-18 r38641)
* checking for file 'y2hStat/DESCRIPTION' ... OK
* this is package 'y2hStat' version '1.3.12'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'y2hStat' 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 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 ... WARNING
Undocumented code objects:
  makeBinVect twowayPERM
Undocumented data sets:
  twTableAPMS twTableY2H
All user-level objects in a package should have documentation entries.
See chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... WARNING
Undocumented arguments in documentation object 'genBPGraph'
  baitAsPrey

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 chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* creating y2hStat-Ex.R ... OK
* checking examples ...

* Installing *source* package 'y2hStat' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: GO
Loading required package: GOstats
Loading required package: graph
Loading required package: Ruuid
Loading required package: annotate
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: RBGL
Loading required package: Biobase
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
Loading required package: multtest
Loading required package: Category
Loading required package: KEGG
Loading required package: hgu95av2
Loading required package: YEAST
Loading required package: graph
Loading required package: Rgraphviz
Loading required package: geneplotter
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
** help
 >>> Building/Updating help pages for package 'y2hStat'
     Formats: text html latex example 
  baitsOnly                         text    html    latex   example
  bpGraphs                          text    html    latex   example
  bpMatrix                          text    html    latex   example
  collectBPStats                    text    html    latex   example
  collectIntactData                 text    html    latex   example
  collectMembranePPI                text    html    latex
  createBPList                      text    html    latex   example
  createTables                      text    html    latex   example
  degreeStats                       text    html    latex   example
  estErrProbMethodOfMoments         text    html    latex   example
  expOverlap                        text    html    latex   example
  findComplexBP                     text    html    latex   example
  genBPGraph                        text    html    latex   example
  inNucleus                         text    html    latex   example
  intAct2Sys                        text    html    latex   example
  intActData                        text    html    latex   example
  map2Systematic                    text    html    latex   example
  map2Systematic2                   text    html    latex
  membranePPI                       text    html    latex   example
  nucStat                           text    html    latex   example
  nullDistDoublyTestedEdges         text    html    latex   example
  ppipred                           text    html    latex   example
  recipBP                           text    html    latex   example
  sWAC2Sys                          text    html    latex   example
  symInteraction                    text    html    latex   example
  tableList                         text    html    latex   example
  y2h                               text    html    latex   example
  y2hSysGW                          text    html    latex   example
** building package indices ...
* DONE (y2hStat)