Package: flowQ

Version: 0.2.3

Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD check flowQ_0.2.3.tar.gz

RetCode: 0

Time: 145.2 seconds

Status: WARNINGS

CheckDir: flowQ.Rcheck

Warnings: 4

* checking for working latex ... OK
* using log directory '/loc/biocbuild/bbs-2.1-bioc/meat/flowQ.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-04-17 r41210)
* checking for file 'flowQ/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowQ' version '0.2.3'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'flowQ' can be installed ... WARNING
Found the following significant warnings:
       missing link(s):  ~~fun~~ CLASSNAME-class
       missing link(s):  ~~fun~~ CLASSNAME-class
See '/loc/biocbuild/bbs-2.1-bioc/meat/flowQ.Rcheck/00install.out' for details.
* 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 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 whether the name space can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... 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 ... WARNING
Rd files with likely Rd problems:
Unaccounted top-level text in file '/loc/biocbuild/bbs-2.1-bioc/meat/flowQ.Rcheck/00_pkg_src/flowQ/man/outlier-class.Rd':
Following section 'note':
"\n\n ~Make other sections like Warning with \\section{Warning }{....} ~\n\n"

Unaccounted top-level text in file '/loc/biocbuild/bbs-2.1-bioc/meat/flowQ.Rcheck/00_pkg_src/flowQ/man/outlierResult-class.Rd':
Following section 'note':
"\n\n ~Make other sections like Warning with \\section{Warning }{....} ~\n\n"

Rd files with non-standard keywords:
  /loc/biocbuild/bbs-2.1-bioc/meat/flowQ.Rcheck/00_pkg_src/flowQ/man/outliers-methods.Rd:
    ~~ other possible keyword(s)
Each '\keyword' entry should specify one of the standard keywords (as
listed in file 'KEYWORDS' in the R documentation directory).

See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking Rd cross-references ... WARNING
Missing link(s) in documentation object 'outlier-class.Rd':
  ~~fun~~

Missing link(s) in documentation object 'outlierResult-class.Rd':
  ~~fun~~

* checking for missing documentation entries ... WARNING
Undocumented code objects:
  outliers
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 ... OK
* creating flowQ-Ex.R ... OK
* checking examples ... OK
* creating flowQ-manual.tex ... OK
* checking flowQ-manual.tex ... OK

WARNING: There were 4 warnings, see
  /loc/biocbuild/bbs-2.1-bioc/meat/flowQ.Rcheck/00check.log
for details

* Installing *source* package 'flowQ' ...
** R
** help
 >>> Building/Updating help pages for package 'flowQ'
     Formats: text html latex example 
  flowQ-package                     text    html    latex   example
  outlier-class                     text    html    latex   example
     missing link(s):  ~~fun~~ CLASSNAME-class
  outlierResult-class               text    html    latex   example
     missing link(s):  ~~fun~~ CLASSNAME-class
  outliers-methods                  text    html    latex
** building package indices ...
* DONE (flowQ)