GSEABase 1.1.14
Biocore Team c/o BioC user list
| Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GSEABase | | Last Changed Rev: 29050 / Revision: 29143 | | Last Changed Date: 2007-12-05 13:57:42 -0800 (Wed, 05 Dec 2007) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | WARNINGS | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | [ WARNINGS ] | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | ERROR | OK |
| lemming | Windows Server 2003 (32-bit) / x64 | OK | WARNINGS | OK |
* checking for working latex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.2-bioc/meat/GSEABase.Rcheck'
* using R version 2.7.0 Under development (unstable) (2007-12-06 r43609)
* checking for file 'GSEABase/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GSEABase' version '1.1.14'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GSEABase' 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 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 ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
subsets
Undocumented S4 methods:
generic 'Logic' and siglist 'CollectionType,CollectionType'
generic 'Logic' and siglist 'CollectionIdType,CollectionIdType'
generic 'Logic' and siglist 'character,GeneSet'
generic 'Logic' and siglist 'character,GeneSetCollection'
generic 'Logic' and siglist 'GeneSet,GeneSetCollection'
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
* creating GSEABase-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... NOTE
--- running texi2dvi on vignettes
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GSEABase.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GSEABase.tex' ...
* creating GSEABase-manual.tex ... OK
* checking GSEABase-manual.tex ... OK
WARNING: There was 1 warning, see
/loc/home/biocbuild/bbs-2.2-bioc/meat/GSEABase.Rcheck/00check.log
for details
/loc/home/biocbuild/bbs-2.2-bioc/meat/GSEABase.Rcheck
* Installing *source* package 'GSEABase' ...
** R
** inst
** preparing package for lazy loading
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)'.
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: annotate
Loading required package: xtable
** help
Note: removing empty section \details
>>> Building/Updating help pages for package 'GSEABase'
Formats: text html latex example
CollectionType-class text html latex example
CollectionType-constructors text html latex example
GSEABase-package text html latex example
GeneColorSet-class text html latex example
GeneColorSet-methods text html latex
GeneIdentifierType-class text html latex example
GeneIdentifierType-constructors text html latex example
GeneSet-class text html latex example
GeneSet-methods text html latex example
GeneSetCollection-class text html latex example
GeneSetCollection-methods text html latex example
OBOCollection-class text html latex example
details-methods text html latex
getOBOCollection text html latex example
getObjects text html latex example
goSlim-methods text html latex example
incidence-methods text html latex example
mapIdentifiers-methods text html latex
** building package indices ...
* DONE (GSEABase)