[Bioc-devel] ALLMLL dataset

[Martin Morgan]

Wolfgang Huber <huber at ebi.ac.uk> writes:

> Hi Ben,
>
> with
>
> library("ALLMLL")
> data("MLL.A")
> show(MLL.A)
> sessionInfo()
>
> I get:
> Error: AffyBatch out-of-date; use 'updateObject(<AffyBatch>)'
>
> updateObject(MLL.A) works beautifully, but I wonder whether it'd be 

Actually, updateObject would (< v 1.13.17) add an se.exprs matrix of
NA's if it were represented by an 0x0 matrix in the original version
of the object; now it removes empty (quietly) or mis-formed (with a
warning) se.exprs; querying the updated object for se.exprs returns an
0x0 matrix, rather than NULL, for consistency with previous behavior.

Martin

> worth centrally updating the package on
> http://www.bioconductor.org/packages/2.0/data/experiment/html/ALLMLL.html
>
> R version 2.5.0 Under development (unstable) (2007-03-18 r40854)
> i686-pc-linux-gnu
>
> locale:
> LC_CTYPE=en_GB.UTF-8;LC_NUMERIC=C;LC_TIME=en_GB.UTF-8;LC_COLLATE=en_GB.UTF-8;LC_MONETARY=en_GB.UTF-8;LC_MESSAGES=en_GB.UTF-8;LC_PAPER=en_GB.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_GB.UTF-8;LC_IDENTIFICATION=C
>
> attached base packages:
> [1] "tools"     "stats"     "graphics"  "grDevices" "utils"     "datasets"
> [7] "methods"   "base"
>
> other attached packages:
>     ALLMLL      affy    affyio   Biobase  fortunes
>    "1.2.0" "1.13.14"   "1.3.3" "1.13.39"   "1.3-2"
> R version 2.5.0 Under development (unstable) (2007-03-18 r40854)
> i686-pc-linux-gnu
>
>    Wolfgang
>
> ------------------------------------------------------------------
> Wolfgang Huber  EBI/EMBL  Cambridge UK  http://www.ebi.ac.uk/huber
>
> _______________________________________________
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-- 
Martin Morgan
Bioconductor / Computational Biology
http://bioconductor.org