gene2pathway 2.13.0
Holger Froehlich
| Snapshot Date: 2013-01-15 17:01:14 -0800 (Tue, 15 Jan 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gene2pathway | | Last Changed Rev: 70052 / Revision: 72575 | | Last Changed Date: 2012-10-01 15:43:56 -0700 (Mon, 01 Oct 2012) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | ERROR | skipped | |
| lamb2 | Linux (openSUSE 11.4) / x86_64 | [ ERROR ] | skipped | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | ERROR | skipped | skipped |
| petty | Mac OS X Leopard (10.5.8) / i386 | ERROR | skipped | skipped |
* checking for file ‘gene2pathway/DESCRIPTION’ ... OK
* preparing ‘gene2pathway’:
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* creating vignettes ... ERROR
Loading required package: kernlab
Loading required package: biomaRt
Loading required package: KEGGSOAP
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following object is masked from ‘package:stats’:
xtabs
The following objects are masked from ‘package:base’:
Filter, Find, Map, Position, Reduce, anyDuplicated, as.data.frame,
cbind, colnames, duplicated, eval, get, intersect, lapply, mapply,
match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rep.int, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unlist
*** Deprecation warning ***: Package ‘KEGGSOAP’ is deprecated. Use
KEGGREST instead.
Loading required package: RBGL
Loading required package: graph
Loading required package: AnnotationDbi
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
‘browseVignettes()’. To cite Bioconductor, see
‘citation("Biobase")’, and for packages ‘citation("pkgname")’.
Loading required package: org.Dm.eg.db
Loading required package: DBI
Loading required package: keggorthology
Loading required package: hgu95av2.db
Loading required package: org.Hs.eg.db
Error: processing vignette ‘gene2pathway.Rnw’ failed with diagnostics:
chunk 4
Error in .SOAP(KEGGserver, "list_organisms", "", action = KEGGaction, :
object ‘KEGGxmlns’ not found
Execution halted