Entering edit mode
Kamila Naxerova
▴
40
@kamila-naxerova-2628
Last seen 10.3 years ago
Hi all,
I am - not very successfully - playing with AnnBuilder and would
appreciate any comments on the error I am getting (system info below).
Confusingly, the same code *seems* to work fine on my windows machine,
only here I don't want to deal with unzipping problems. Sorry if this
is
something obvious.
platform x86_64-unknown-linux-gnu
arch x86_64
os linux-gnu
system x86_64, linux-gnu
status
major 2
minor 7.1
year 2008
month 06
day 23
svn rev 45970
language R
library(hgu133plus2.db)
x=hgu133plus2ENTREZID
xx=as.list(x)
basefile=data.frame(names(xx),as.character(unlist(xx)))
write.table(basefile,"Basefile.txt",sep="\t",row.names=F)
library(AnnBuilder)
mySrcUrls=getSrcUrl("all",organism="Homo sapiens")
ABPkgBuilder(baseName = read.table("Basefile.txt",header=F,sep="\t"),
srcUrls = mySrcUrls, baseMapType ="ll", pkgName = "hgu133plus2",
pkgPath = getwd(), organism = "Homo sapiens", version = "1.1.0",author
=
list(authors = "K"),fromWeb=TRUE)
Error in validObject(.Object) :
invalid class "UG" object: invalid object for slot "baseFile" in
class
"UG": got class "data.frame", should be or extend class "character"
Calls: ABPkgBuilder ... UG -> new -> initialize -> initialize ->
validObject
Execution halted
Thanks,
Kamila