stam 1.7.1
Claudio Lottaz
| Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/stam | | Last Changed Rev: 28490 / Revision: 29143 | | Last Changed Date: 2007-11-06 01:05:01 -0800 (Tue, 06 Nov 2007) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | ERROR | skipped | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | ERROR | skipped | |
| wellington | Linux (openSUSE 10.3) / i686 | [ ERROR ] | skipped | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | ERROR | skipped | skipped |
| lemming | Windows Server 2003 (32-bit) / x64 | ERROR | skipped | skipped |
* checking for file 'stam/DESCRIPTION' ... OK
* preparing 'stam':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
/tmp/Rinst352096767
* Installing *source* package 'stam' ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c util.c -o util.o
gcc -std=gnu99 -shared -L/usr/local/lib -o stam.so util.o -L/home/biocbuild/bbs-2.2-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
Loading required package: GO
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: pamr
Loading required package: cluster
Loading required package: survival
Loading required package: splines
Loading required package: annaffy
Loading required package: GO.db
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Attaching package: 'GO.db'
The following object(s) are masked from package:GO :
GOBPANCESTOR,
GOBPCHILDREN,
GOBPOFFSPRING,
GOBPPARENTS,
GOCCANCESTOR,
GOCCCHILDREN,
GOCCOFFSPRING,
GOCCPARENTS,
GOMAPCOUNTS,
GOMFANCESTOR,
GOMFCHILDREN,
GOMFOFFSPRING,
GOMFPARENTS,
GOOBSOLETE,
GOSYNONYM,
GOTERM
Loading required package: KEGG
** help
Note: unmatched right brace in 'golubTrain.cv' on or after line 10
Note: unmatched right brace in 'golubTrain.fit' on or after line 10
Note: unmatched right brace in 'stamPrediction-class' on or after line 52
>>> Building/Updating help pages for package 'stam'
Formats: text html latex example
golubTrain.cv text html latex
golubTrain.fit text html latex
image.stamPrediction text html latex
plot.stamCV text html latex
plot.stamFit text html latex
plot.stamPrediction text html latex
stam-internal text html latex
stam.cv text html latex example
stam.evaluate text html latex example
stam.fit text html latex example
stam.graph.plot text html latex
stam.net text html latex example
stam.predict text html latex example
stam.rgb.colors text html latex example
stam.serve text html latex example
stam.writeHTML text html latex example
stamCV-class text html latex
stamEval-class text html latex
stamFit-class text html latex
stamINode-class text html latex
stamLeaf-class text html latex
stamNet-class text html latex
stamNode-class text html latex
stamPrediction-class text html latex
** building package indices ...
Warning: 'golubTrain.cv' looks like a pre-2.4.0 S4 object: please recreate it
Warning: 'golubTrain.fit' looks like a pre-2.4.0 S4 object: please recreate it
* DONE (stam)
* creating vignettes ... ERROR
Loading required package: Biobase
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: GO
Loading required package: pamr
Loading required package: cluster
Loading required package: survival
Loading required package: splines
Loading required package: annaffy
Loading required package: GO.db
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Attaching package: 'GO.db'
The following object(s) are masked from package:GO :
GOBPANCESTOR,
GOBPCHILDREN,
GOBPOFFSPRING,
GOBPPARENTS,
GOCCANCESTOR,
GOCCCHILDREN,
GOCCOFFSPRING,
GOCCPARENTS,
GOMAPCOUNTS,
GOMFANCESTOR,
GOMFCHILDREN,
GOMFOFFSPRING,
GOMFPARENTS,
GOOBSOLETE,
GOSYNONYM,
GOTERM
Loading required package: KEGG
Loading required package: affy
Loading required package: affyio
Loading required package: preprocessCore
Loading required package: limma
Loading required package: hu6800
Error: processing vignette 'tr_2004_03.Rnw' failed with diagnostics:
chunk 4
Error in as.environment(pos) : invalid object for 'as.environment'
Execution halted