[BioC] Loading more than 16 annotation packages fails

[Seth Falcon]

* On 2008-07-28 at 16:29 -0400 Tarca, Adi wrote:
> I have 17 array annotation packages that I want to load and use the
> information in them.
> After every package loading (via require) I detach the package.
> However, I run out of RS-DBI connections. 
> Here is the code:
> 
> 
> > chips
>  [1] "ag"          "ath1121501"  "drosgenome1" "drosophila2" "hcg110"
> "hgfocus"     "hgu133a"     "hgu133a2"   
>  [9] "hgu133b"     "hgu133plus2" "hgu95a"      "hgu95av2"    "hgu95b"
> "hgu95d"      "hgu95e"      "hu35ksuba"  
> [17] "hu35ksubb"  
> > for (cip in 1:length(chips)){
> + if (require(paste(chips[cip],"db",sep="."),character.only=TRUE)){
> + 
> + pac<-paste("package:",chips[cip],".db",sep="")
> + detach(pos = match(pac, search()))

Try passing unload=TRUE to detach?

The following is working for me, although I probably have out of date
packages:

     for (x in 1:50) { 
         require("rae230a.db")
         detach("package:rae230a.db", unload=TRUE)
     }

Unloading the rae230a.db namespace gives a warning, which is probably
another matter:

    > require("rae230a.db")
    Loading required package: rae230a.db
    > detach("package:rae230a.db", unload=TRUE)
    Warning message:
    In getPackageName(where) :
      Created a package name, "2008-07-28 16:52:36", when none found


> sessionInfo()
R version 2.8.0 Under development (unstable) (--) 
i386-apple-darwin9.2.2 

locale:
C

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

other attached packages:
[1] AnnotationDbi_1.1.20 RSQLite_0.6-8        DBI_0.2-4           
[4] Biobase_1.17.13  

-- 
Seth Falcon | http://userprimary.net/user/