Package: y2hStat

Version: 1.3.12

Command: E:\hpages\1.9d\R\bin\R.exe CMD check y2hStat_1.3.12.tar.gz

RetCode: 0

Time: 789.4 seconds

Status: WARNINGS

CheckDir: y2hStat.Rcheck

Warnings: 3

* checking for working latex ... OK
* using log directory 'E:/hpages/1.9d/Rpacks/y2hStat.Rcheck'
* using R version 2.4.0 alpha (2006-09-10 r39242)
* 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 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 ... WARNING
Loading required package: GO

Loading required package: GOstats

Loading required package: graph

Loading required package: Ruuid

Loading required package: methods

Error in inherits(x, "factor") : could not find function "installed.packages"
Error: .onLoad failed in 'loadNamespace' for 'Ruuid'
Error: package 'Ruuid' could not be loaded
Execution halted

It looks like this package (or one of its dependent packages) has an
unstated dependence on a standard package.  All dependencies must be
declared in DESCRIPTION.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* 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 the 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 the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* creating y2hStat-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating y2hStat-manual.tex ... OK
* checking y2hStat-manual.tex ... OK

WARNING: There were 3 warnings, see
  E:/hpages/1.9d/Rpacks/y2hStat.Rcheck/00check.log
for details

installing R.css in E:/hpages/1.9d/Rpacks/y2hStat.Rcheck


---------- Making package y2hStat ------------
  adding build stamp to DESCRIPTION
  installing R files
  installing inst files
  installing data files
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'y2hStat'
     Formats: text html latex example chm 
  baitsOnly                         text    html    latex   example chm
  bpGraphs                          text    html    latex   example chm
  bpMatrix                          text    html    latex   example chm
  collectBPStats                    text    html    latex   example chm
  collectIntactData                 text    html    latex   example chm
  collectMembranePPI                text    html    latex           chm
  createBPList                      text    html    latex   example chm
  createTables                      text    html    latex   example chm
  degreeStats                       text    html    latex   example chm
  estErrProbMethodOfMoments         text    html    latex   example chm
  expOverlap                        text    html    latex   example chm
  findComplexBP                     text    html    latex   example chm
  genBPGraph                        text    html    latex   example chm
  inNucleus                         text    html    latex   example chm
  intAct2Sys                        text    html    latex   example chm
  intActData                        text    html    latex   example chm
  map2Systematic                    text    html    latex   example chm
  map2Systematic2                   text    html    latex           chm
  membranePPI                       text    html    latex   example chm
  nucStat                           text    html    latex   example chm
  nullDistDoublyTestedEdges         text    html    latex   example chm
  ppipred                           text    html    latex   example chm
  recipBP                           text    html    latex   example chm
  sWAC2Sys                          text    html    latex   example chm
  symInteraction                    text    html    latex   example chm
  tableList                         text    html    latex   example chm
  y2h                               text    html    latex   example chm
  y2hSysGW                          text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\hpages\1.9d\Rpacks\y2hStat.Rcheck\00_pkg_src\y2hStat\chm\y2hStat.chm


Compile time: 0 minutes, 0 seconds
29	Topics
56	Local links
3	Internet links
1	Graphic


Created e:\hpages\1.9d\Rpacks\y2hStat.Rcheck\00_pkg_src\y2hStat\chm\y2hStat.chm, 45,174 bytes
Compression decreased file by 34,200 bytes.
  preparing package y2hStat 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: 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: Rgraphviz

Loading required package: geneplotter

  adding MD5 sums

* DONE (y2hStat)