GOstats 2.5.0
Robert Gentleman
| Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GOstats | | Last Changed Rev: 28111 / Revision: 29143 | | Last Changed Date: 2007-10-21 09:23:03 -0700 (Sun, 21 Oct 2007) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | OK | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | [ OK ] | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | ERROR | skipped | skipped |
| lemming | Windows Server 2003 (32-bit) / x64 | ERROR | skipped | skipped |
* checking for working latex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.2-bioc/meat/GOstats.Rcheck'
* using R version 2.7.0 Under development (unstable) (2007-12-06 r43609)
* checking for file 'GOstats/DESCRIPTION' ... OK
* this is package 'GOstats' version '2.5.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GOstats' 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 ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* creating GOstats-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' './GOstatsHyperG.tex' ...
Package natbib Warning: Citation `GO' on page 1 undefined on input line 44.
Package natbib Warning: Citation `Alexa06' on page 1 undefined on input line 48
Package natbib Warning: Citation `Chiaretti2004' on page 1 undefined on input l
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GOstatsHyperG.tex' ...
Package natbib Warning: Citation `GO' on page 1 undefined on input line 44.
Package natbib Warning: Citation `Alexa06' on page 1 undefined on input line 48
Package natbib Warning: Citation `Chiaretti2004' on page 1 undefined on input l
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GOstatsHyperG.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GOvis.tex' ...
Package natbib Warning: Citation `GO' on page 1 undefined on input line 47.
Package natbib Warning: Citation `GentGO2004a' on page 1 undefined on input lin
Package natbib Warning: Citation `GOA' on page 1 undefined on input line 51.
Package natbib Warning: Citation `Chiaretti2004' on page 1 undefined on input l
Package natbib Warning: Citation `GOA' on page 1 undefined on input line 83.
Package natbib Warning: Citation `Chiaretti2004' on page 2 undefined on input l
Package natbib Warning: Citation `Irizarry2003' on page 2 undefined on input li
Package natbib Warning: Citation `WileyEncy' on page 2 undefined on input line
Package natbib Warning: Citation `Storch' on page 3 undefined on input line 211
Package natbib Warning: Citation `GO' on page 3 undefined on input line 215.
Package natbib Warning: Citation `Lordetal' on page 9 undefined on input line 3
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GOvis.tex' ...
Package natbib Warning: Citation `GO' on page 1 undefined on input line 47.
Package natbib Warning: Citation `GentGO2004a' on page 1 undefined on input lin
Package natbib Warning: Citation `GOA' on page 1 undefined on input line 51.
Package natbib Warning: Citation `Chiaretti2004' on page 1 undefined on input l
Package natbib Warning: Citation `GOA' on page 1 undefined on input line 83.
Package natbib Warning: Citation `Chiaretti2004' on page 2 undefined on input l
Package natbib Warning: Citation `Irizarry2003' on page 2 undefined on input li
Package natbib Warning: Citation `WileyEncy' on page 2 undefined on input line
Package natbib Warning: Citation `Storch' on page 3 undefined on input line 211
Package natbib Warning: Citation `GO' on page 3 undefined on input line 215.
Package natbib Warning: Citation `Lordetal' on page 9 undefined on input line 3
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GOvis.tex' ...
Package natbib Warning: Citation `GentGO2004a' on page 1 undefined on input lin
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GOvis.tex' ...
* creating GOstats-manual.tex ... OK
* checking GOstats-manual.tex ... OK
/loc/home/biocbuild/bbs-2.2-bioc/meat/GOstats.Rcheck
* Installing *source* package 'GOstats' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: graph
Loading required package: GO.db
Loading required package: AnnotationDbi
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: DBI
Loading required package: RSQLite
Loading required package: annotate
Loading required package: xtable
Loading required package: RBGL
Loading required package: Category
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
** help
>>> Building/Updating help pages for package 'GOstats'
Formats: text html latex example
GOHyperG text html latex example
GOHyperGResult-class text html latex
GOLeaves text html latex example
GOstats-defunct text html latex
GOstats-package text html latex
Ndists text html latex example
compCorrGraph text html latex example
compGdist text html latex example
hyperGTest text html latex
idx2dimnames text html latex example
makeGOGraph text html latex example
notConn text html latex example
oneGOGraph text html latex example
probeSetSummary text html latex example
shortestPath text html latex example
simLL text html latex example
termGraphs text html latex
triadCensus text html latex example
** building package indices ...
* DONE (GOstats)