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Package 39/260HostnameOS / ArchBUILDCHECKBUILD BIN
biomaRt 1.14.0
Steffen Durinck
Snapshot Date: 2008-08-08 00:12:03 -0700 (Fri, 08 Aug 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/biomaRt
Last Changed Rev: 31430 / Revision: 33132
Last Changed Date: 2008-04-29 16:50:18 -0700 (Tue, 29 Apr 2008)
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 
pitt Mac OS X Tiger (10.4.11) / i386  ERROR  skipped  skipped 
Package: biomaRt
Version: 1.14.0
Command: E:\biocbld\bbs-2.2-bioc\R\bin\R.exe CMD build biomaRt
StartedAt: 2008-08-08 03:29:13 -0700 (Fri, 08 Aug 2008)
EndedAt: 2008-08-08 03:29:46 -0700 (Fri, 08 Aug 2008)
EllapsedTime: 32.7 seconds
RetCode: 1
Status: ERROR
PackageFile: None
PackageFileSize: NA

Command output

* checking for file 'biomaRt/DESCRIPTION' ... OK
* preparing 'biomaRt':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
installing R.css in E:/biocbld/bbs-2.2-bioc/tmpdir/Rinst407666598


---------- Making package biomaRt ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  installing inst files
  preparing package biomaRt for lazy loading
Loading required package: RCurl
  installing man source files
  installing indices
  installing help
Note: removing empty section \seealso
Note: removing empty section \seealso
 >>> Building/Updating help pages for package 'biomaRt'
     Formats: text html latex example chm 
  Mart-class                        text    html    latex           chm
  attributeSummary                  text    html    latex   example chm
  exportFASTA                       text    html    latex   example chm
  filterOptions                     text    html    latex   example chm
  filterSummary                     text    html    latex   example chm
  filterType                        text    html    latex   example chm
  getAffyArrays                     text    html    latex   example chm
  getBM                             text    html    latex   example chm
  getGO                             text    html    latex   example chm
  getGene                           text    html    latex   example chm
  getHomolog                        text    html    latex   example chm
  getLDS                            text    html    latex   example chm
  getSNP                            text    html    latex   example chm
  getSequence                       text    html    latex   example chm
  listAttributes                    text    html    latex   example chm
  listDatasets                      text    html    latex   example chm
  listFilters                       text    html    latex   example chm
  listMarts                         text    html    latex   example chm
  martDisconnect                    text    html    latex   example chm
  parseAttributes                   text    html    latex           chm
  parseFilters                      text    html    latex           chm
  useDataset                        text    html    latex   example chm
  useMart                           text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702



Compiling e:\biocbld\bbs-2.2-bioc\meat\biomaRt\chm\biomaRt.chm





Compile time: 0 minutes, 0 seconds

24	Topics

47	Local links

9	Internet links

1	Graphic





Created e:\biocbld\bbs-2.2-bioc\meat\biomaRt\chm\biomaRt.chm, 34,658 bytes

Compression decreased file by 29,385 bytes.

  adding MD5 sums

* DONE (biomaRt)
* 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: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: xtable
Loading required package: RCurl

Attaching package: 'biomaRt'


	The following object(s) are masked from package:annotate :

	 getGO 


Error: processing vignette 'biomaRt.Rnw' failed with diagnostics:
 chunk 11 
Error in getBM(attributes = c("entrezgene", "go", "go_description", "evidence_code"),  : 
  Invalid attribute(s): go, go_description, evidence_code 
Please use the function 'listAttributes' to get valid attribute names
Execution halted