[BioC] FW: Cannot restore saved data in .Rdata after loading tilingArray - object 'breakpoints' not found

[Wolfgang Huber]

Hi Steven,

using a more recent devel version of R and the other packages, the 
problem seems to have gone away, I can

1. rm .RData
2. Start R
3. (in R:) library(tilingArray); example(segment); q("yes")
   ## this will create an object 'res' of class segmentation

4. Start R again:
  [Previously saved workspace restored]
5. typing "res" will load the dependencies and print a summary of the 
object.

So - your problem results from a feature in R, name spaces, that has 
recently undergone and is currently undergoing some changes. We package 
developers are trying to keep up with it, but some hickups may be expected:
http://www.bioconductor.org/checkResults/1.9/gopher5-tilingArray-checksrc.html

  Best wishes
  Wolfgang


 > sessionInfo()
R version 2.4.0 Under development (unstable) (2006-08-25 r38982)
x86_64-unknown-linux-gnu

locale:
LC_CTYPE=en_US;LC_NUMERIC=C;LC_TIME=en_US;LC_COLLATE=en_US;LC_MONETARY=en_US;LC_MESSAGES=en_US;LC_PAPER=en_US;LC_NAME=C;L 
C_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US;LC_IDENTIFICATION=C

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

other attached packages:
  tilingArray       pixmap  geneplotter     annotate   genefilter 
survival
     "1.11.9"      "0.4-4"     "1.11.8"     "1.11.4"     "1.11.8" 
"2.28"
          vsn   colorspace  strucchange     sandwich          zoo 
RColorBrewer
     "1.11.2"        "0.9"      "1.3-0"      "2.0-0"      "1.2-0" 
"0.2-3"
         affy       affyio      Biobase     fortunes
     "1.11.6"      "1.1.7"    "1.11.28"      "1.2-1"
 >