[Bioc-devel] warning messages when loading affycoretools in BioC-devel

[Mark W Kimpel]

I get the warning messages below (way below) when loading affycoretools 
into R-devel. SessionInfo and output of the load is below. I am running 
R on Linus openSuse 10.2. Thanks, Mark


 > require(affycoretools)
Loading required package: affycoretools
Loading required package: affy
Loading required package: affyio
Loading required package: preprocessCore
Loading required package: limma
Loading required package: GOstats
Loading required package: GO
Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: RBGL
Loading required package: Category
Loading required package: KEGG
Loading required package: genefilter
Loading required package: survival
Loading required package: splines
Loading required package: biomaRt
Loading required package: XML

Attaching package: 'XML'


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

	 addNode

Loading required package: RCurl

Attaching package: 'biomaRt'


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

	 getGO

Loading required package: gcrma
Loading required package: matchprobes
Loading required package: xtable
Loading required package: annaffy

Attaching package: 'affycoretools'


	The following object(s) are masked _by_ .GlobalEnv :

	 vennCounts2,
	 vennSelect

Warning messages:
1: In .updateMethodsInTable(fdef, where, attach) :
   Couldn't find methods table for "conditional", package "Category" may 
be out of date
2: In .updateMethodsInTable(fdef, where, attach) :
   Methods list for generic "conditional" not found

 > sessionInfo()
R version 2.6.0 Under development (unstable) (2007-08-08 r42441)
i686-pc-linux-gnu

locale:
LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=en_US.UTF-8;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C

attached base packages:
  [1] tcltk     splines   tools     stats     graphics  grDevices utils
  [8] datasets  methods   base

other attached packages:
  [1] affycoretools_1.9.4    annaffy_1.9.1          xtable_1.5-0
  [4] gcrma_2.9.1            matchprobes_1.9.10     biomaRt_1.11.4
  [7] RCurl_0.8-1            XML_1.9-0              GOstats_2.3.8
[10] Category_2.3.19        genefilter_1.15.9      survival_2.32
[13] KEGG_1.17.0            RBGL_1.13.3            annotate_1.15.3
[16] AnnotationDbi_0.0.88   RSQLite_0.6-0          DBI_0.2-3
[19] GO_1.17.0              limma_2.11.9           affy_1.15.7
[22] preprocessCore_0.99.12 affyio_1.5.6           Biobase_1.15.23
[25] graph_1.15.10

loaded via a namespace (and not attached):
[1] cluster_1.11.7
-- 

---

Mark W. Kimpel MD  ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine

15032 Hunter Court, Westfield, IN  46074

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