[Bioc-devel] unexpected interaction of "exprSet" and "DBI" package

Wolfgang Huber huber at ebi.ac.uk
Sun Apr 15 01:12:17 CEST 2007


has anybody seen the following phenomenon before or have an idea whether 
it is to be considered a bug in either methods, Biobase or DBI?

new("exprSet", description = new("MIAME"))

Error in .mergeMethodsTable(generic, mtable, get(tname, envir = env),  :
         Invalid object in meta table of methods for "coerce", label 
"list#Versions", had class "function"

Thanks to Jelle Goeman, who pointed out a version of this problem. My 
attempts to more closely locate the origin have so far not been 
successul. The error does not occur when 'description = new("MIAME")' is 

  Best wishes

Wolfgang Huber  EBI/EMBL  Cambridge UK  http://www.ebi.ac.uk/huber

 > sessionInfo()
R version 2.5.0 beta (2007-04-14 r41163)


attached base packages:
[1] "tools"     "stats"     "graphics"  "grDevices" "utils"     "datasets"
[7] "methods"   "base"

other attached packages:
   Biobase  fortunes
"1.13.49"   "1.3-2"

 > packageDescription("DBI")
Package: DBI
Version: 0.2-1
Title: R Database Interface
Author: R Special Interest Group on Databases (R-SIG-DB)
Maintainer: David A. James <daj025 at gmail.com>
Depends: R (>= 2.3.0), methods
Imports: methods
Description: A database interface (DBI) definition for communication
         between R and relational database management systems.  All
         classes in this package are virtual and need to be extended by
         the various R/DBMS implementations.
SaveImage: yes
License: GPL (version 2 or later)
Collate: setup.R DBI.R Util.R zzz.R
Packaged: Tue Mar 27 15:36:48 2007; sfalcon
Built: R 2.5.0; ; 2007-04-05 09:35:39; unix

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