Error in systemPipeR

Question

[Parham]

Hi,

I am trying systemPipeR manual. In the very beginning I get following error. I don't know what to do. Any help is appreciated.

Thanks!

source("systemPipeRNAseq_Fct.R")
Error in file(filename, "r", encoding = encoding) :
  cannot open the connection
In addition: Warning message:
In file(filename, "r", encoding = encoding) :
  cannot open file 'systemPipeRNAseq_Fct.R': No such file or direc

Answer 1

[Ram]

Looks like you might not have the R script in your working directory. You can setwd() to the dir that contains the script, or copy it over to your working directory and then try again.

Also, doesn't look like your line is in the manual here

[Parham]

It doesn't say where this script is placed! Therefore I have no clue how to set the directory to it or copy it!

It's from section 2.2. from this manual if you could have a look please.

Thanks!

[Ram]

You don't need to do both library() and source(). Use the link I gave you to install systempipeR and then run library(), that should work.

The source() is only if you have any custom functions to load.

[Parham]

Oh thanks! I was doing both, now I skip source().