error in reading decoder file

[CS791]

Hi!
I am using JunctionSeq first time and not very expert in R language.
While running JunctionSeq analysis I am getting an error in reading decoder file. Here is the command and error:
"#Read the decoder:
decoder.file <- system.file("~/R/Splicejunction/annoFiles/decoder.bySample.txt",
package="JunctionSeq");
decoder <- read.table(decoder.file,
header=TRUE,
stringsAsFactors=FALSE)"

"Error in read.table(decoder.file, header = TRUE, stringsAsFactors = FALSE) :
no lines available in input
In addition: Warning message:
In file(file, "rt") :
file("") only supports open = "w+" and open = "w+b": using the former"

Any help is much appreciated.

Thanks
CS

[hartleys]

the system.file invocation from the vignette is just to get the special files that come with the vignette. Replace the whole thing with the file name. Also to be safe I would use the full path instead of the tilde. So like:

decoder.file <- "/home/blahblah/R/Splicejunction/annoFiles/decoder.bySample.txt"

Then run the rest as is