Hello,

I am trying to follow the openCyto vignette and get the following error messages when loading openCyto library:

> library("openCyto", lib.loc="~/R/win-library/3.1")
Error : objects ‘dfltCounts’, ‘drvkde’ are not exported by 'namespace:ks'
Error: package or namespace load failed for ‘openCyto’

Many thanks in advance for your help,

NB:

> sessionInfo()
R version 3.1.2 (2014-10-31)
Platform: x86_64-w64-mingw32/x64 (64-bit)

locale:
[1] LC_COLLATE=English_United Kingdom.1252  LC_CTYPE=English_United Kingdom.1252   
[3] LC_MONETARY=English_United Kingdom.1252 LC_NUMERIC=C                           
[5] LC_TIME=English_United Kingdom.1252    

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

other attached packages:
 [1] BiocInstaller_1.16.5      ggplot2_2.0.0             clue_0.3-51               reshape2_1.4.1           
 [5] data.table_1.9.6          flowWorkspace_3.12.06     gridExtra_2.0.0           ncdfFlow_2.12.0          
 [9] BH_1.60.0-1               RcppArmadillo_0.6.400.2.2 flowViz_1.30.1            lattice_0.20-33          
[13] flowCore_1.32.2          

loaded via a namespace (and not attached):
Error in x[["Version"]] : subscript out of bounds
In addition: Warning messages:
1: In FUN(c("Biobase", "BiocGenerics", "chron", "cluster", "coda",  :
  DESCRIPTION file of package 'cluster' is missing or broken
2: In FUN(c("Biobase", "BiocGenerics", "chron", "cluster", "coda",  :
  DESCRIPTION file of package 'KernSmooth' is missing or broken
3: In FUN(c("Biobase", "BiocGenerics", "chron", "cluster", "coda",  :
  DESCRIPTION file of package 'MASS' is missing or broken
4: In FUN(c("Biobase", "BiocGenerics", "chron", "cluster", "coda",  :
  DESCRIPTION file of package 'mvtnorm' is missing or broken

I think you need to update your version of R and get the more up-to-date versions on the various libraries.  There's some discussion of those functions being moved from the ks package here (https://github.com/RGLab/flowStats/issues/16)