[BioC] missing example data from cghMCR package

[Burak Kutlu]

Hi
I am trying to replicate the example in the vignette of cghMCR package.
I am afraid the data is not bundled in the package, I verified that
they do not exist in the ~/lib/R/cghMCR/data directory.
-burak

> arrayFiles  <- list.files(system.file("sampleData", package = "cghMCR"),
+      full.names = TRUE, pattern = "TCGA")
Warning message:
In list.files(system.file("sampleData", package = "cghMCR"),
full.names = TRUE,  :
  list.files: '' is not a readable directory
> arrayFiles
character(0)
>
>
> system.file("sampleData", package = "cghMCR")
[1] ""
>
> sessionInfo()
R version 2.10.1 (2009-12-14)
x86_64-unknown-linux-gnu

locale:
[1] LC_CTYPE=en_US.UTF-8      LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=C              LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8      LC_NAME=C
[9] LC_ADDRESS=C              LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] grid      stats    graphics  grDevices datasets  utils    methods
[8] base

other attached packages:
[1] cghMCR_1.14.0      arrayQuality_1.24.0 RColorBrewer_1.0-2
[4] gridBase_0.4-3      hexbin_1.20.0      lattice_0.17-26
[7] convert_1.22.0      marray_1.24.0      DNAcopy_1.18.0
[10] limma_3.2.1        org.Hs.eg.db_2.3.6  GSEABase_1.8.0
[13] annotate_1.24.0    RMySQL_0.7-4        Biostrings_2.14.8
[16] IRanges_1.4.9      RUnit_0.4.25        GOstats_2.12.0
[19] graph_1.24.2        Category_2.12.0    GO.db_2.3.5
[22] org.Mm.eg.db_2.3.6  RSQLite_0.8-1      DBI_0.2-5
[25] AnnotationDbi_1.8.1 Biobase_2.6.1

loaded via a namespace (and not attached):
[1] genefilter_1.28.2 RBGL_1.22.0      splines_2.10.1    survival_2.35-7
[5] tools_2.10.1      XML_2.6-0        xtable_1.5-6
>


-- 
Burak Kutlu, PhD.
Research Scientist
Hood Lab
Institute for Systems Biology