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Package 126/319HostnameOS / ArchBUILDCHECKBUILD BIN
GEOquery 2.8.0
Sean Davis
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/GEOquery
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 Linux (openSUSE 11.1) / x86_64 [ ERROR ] skipped 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
Package: GEOquery
Version: 2.8.0
Command: /home/biocbuild/bbs-2.4-bioc/R/bin/R CMD build GEOquery
StartedAt: 2009-10-20 13:54:34 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 13:56:39 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 124.4 seconds
RetCode: 1
Status: ERROR
PackageFile: None
PackageFileSize: NA

Command output

* checking for file 'GEOquery/DESCRIPTION' ... OK
* preparing 'GEOquery':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* Installing *source* package 'GEOquery' ...
** R
** inst
** preparing package for lazy loading

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: bitops
** help
*** installing help indices
 >>> Building/Updating help pages for package 'GEOquery'
     Formats: text html latex example 
  GDS-class                         text    html    latex
  GDS2MA                            text    html    latex   example
  GEOData-class                     text    html    latex
  GEODataTable-class                text    html    latex
  GPL-class                         text    html    latex
  GSE-class                         text    html    latex
  GSM-class                         text    html    latex
Note: removing empty section \usage in file 'dataTable.Rd'
Note: removing empty section \details in file 'dataTable.Rd'
Note: removing empty section \arguments in file 'dataTable.Rd'
  dataTable                         text    html    latex
  getGEO                            text    html    latex   example
  getGEOSuppFiles                   text    html    latex   example
  getGEOfile                        text    html    latex   example
  gunzip                            text    html    latex
  parseGEO                          text    html    latex
** building package indices ...
* DONE (GEOquery)
* 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: RCurl
Loading required package: bitops
trying URL 'ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SOFT/GDS/GDS10.soft.gz'

Error: processing vignette 'GEOquery.Rnw' failed with diagnostics:
 chunk 2 
Error in download.file(myurl, destfile, mode = mode) : 
  cannot open URL 'ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SOFT/GDS/GDS10.soft.gz'
Execution halted