Error in read.table " no lines available in input"

[SC791]

Hi!

I am using R to read my file and stuck with an error. I am new to R community. Any help is much appreciated. Here is the command and error:

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

[siddharthprabhu]

Hi @SC791, welcome to RStudio Community.

I'm not sure why you are using system.file(). You just need to pass the file path as a string. Does it work if you modify your read.table() call as follows:

read.table("~/R/Splicejunction/annoFiles/decoder.bySample.txt", 
           header=TRUE, 
           stringsAsFactors = FALSE)

[andresrcs]

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[SC791]

Hi! sidhartprabhu,

Thank you! for your reply.
yes, it is working fine now. Sorry I am just new to R and just using others pipeline.

Thanks!
SC