[BioC] ChomoViz atomic error

[Morten Mattingsdal]

Im sorry... I figured out this myself.. I was missing the headers in the 
input file. The error has nothing to do with format of the input 
object.  Maybe an idea to add a check for this in the code?

before:
default    9606    chr7    +    133614711    133628469    4.3    NM_020299
default    9606    chr7    +    39696888    39841925    5.5    NM_003718

after:
track    taxonomy    chrom    strand    begin    end    value    item
default    9606    chr7    +    133614711    133628469    4.3    NM_020299
default    9606    chr7    +    39696888    39841925    5.5    NM_003718

morten

> Hello everybody,
>
> I want to explore my data in ChromoViz package, but i have some 
> difficulties in performing the cViz command. I get an error telling me 
> that my data object must me atomic, but is.atmoic insists that the 
> object is indeed atmoic. Yourdata is the example data on the homepage 
> of ChromoViz and read into R as a tab file
>
>
> library(RSvgDevice)
> library(XML)
> library(ChromoViz)
> data(cytoBand9606)
> yourdata<-read.table("Result.txt")
> cViz(yourdata, cytoBand9606)
> #Error in sort(unique.default(x), na.last = TRUE) :
> #        `x' must be atomic
> is.atomic(yourdata)
> # [1] FALSE
> yourdata2<-as.matrix(yourdata)
> is.atomic(yourdata2)
> # [1] TRUE
> cViz(yourdata2, cytoBand9606)
> #Error in sort(unique.default(x), na.last = TRUE) :
> #        `x' must be atomic
>
> What is this error trying to tell me? Any help is highly appriciated
>
> regards
> morten