Package: MAQCsubset

Version: 1.0.2

Command: D:\biocbld\bbs-2.0-bioc\R\bin\R.exe CMD check MAQCsubset_1.0.2.tar.gz

RetCode: 0

Time: 124.6 seconds

Status: WARNINGS

CheckDir: MAQCsubset.Rcheck

Warnings: 4

* checking for working latex ... OK
* using log directory 'D:/biocbld/bbs-2.0-data-experiment/meat/MAQCsubset.Rcheck'
* using R version 2.5.1 (2007-06-27)
* checking for file 'MAQCsubset/DESCRIPTION' ... OK
* this is package 'MAQCsubset' version '1.0.2'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'MAQCsubset' can be installed ... WARNING
Found the following significant warnings:
       missing link(s):  AssayData-class
See 'D:/biocbld/bbs-2.0-data-experiment/meat/MAQCsubset.Rcheck/00install.out' for details.
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... WARNING
Vignettes with missing or empty \VignetteIndexEntry:
[1] "maqcNotes"
See the information on INDEX files and package subdirectories in the
chapter 'Creating R packages' of the 'Writing R Extensions' manual.
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... WARNING
'library' or 'require' calls not declared from:
  genefilter
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:
  proboscis
Undocumented S4 methods:
  generic 'lines' and siglist 'proboStruct'
  generic 'plot' and siglist 'proboStruct'
  generic 'show' and siglist 'proboStruct'
All user-level objects in a package (including S4 classes and methods)
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 ... OK
* checking data for non-ASCII characters ... OK
* creating MAQCsubset-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating MAQCsubset-manual.tex ... OK
* checking MAQCsubset-manual.tex ... OK

WARNING: There were 4 warnings, see
  D:/biocbld/bbs-2.0-data-experiment/meat/MAQCsubset.Rcheck/00check.log
for details

installing R.css in D:/biocbld/bbs-2.0-data-experiment/meat/MAQCsubset.Rcheck


---------- Making package MAQCsubset ------------
  adding build stamp to DESCRIPTION
  installing R files
  save image
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

[1] "proboStruct"
[1] "show"
Creating a new generic function for "plot" in "MAQCsubset"
[1] "plot"
Creating a new generic function for "lines" in "MAQCsubset"
[1] "lines"
  installing inst files
  installing data files
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'MAQCsubset'
     Formats: text html latex example chm 
  MAQCsubset                        text    html    latex   example chm
  proboStruct-class                 text    html    latex   example chm
     missing link(s):  AssayData-class
Microsoft HTML Help Compiler 4.74.8702

Compiling d:\biocbld\bbs-2.0-data-experiment\meat\MAQCsubset.Rcheck\00_pkg_src\MAQCsubset\chm\MAQCsubset.chm


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


Created d:\biocbld\bbs-2.0-data-experiment\meat\MAQCsubset.Rcheck\00_pkg_src\MAQCsubset\chm\MAQCsubset.chm, 17,221 bytes
Compression increased file by 7,013 bytes.
  adding MD5 sums

* DONE (MAQCsubset)