I have a R script that should change the working directory using setwd().
My code:
setwd(file.path(work_dir, database_dir, study))
I can pause my script just before this line is supposed to execute (using browser()) enter the code into the console without issue, but whenever the line is executed from the script I get the error box stating that there is an "error while opening file: The system cannot find the file specified." Within my script before calling the setwd, I confirmed that the path exists using file.exists(file.path(work_dir, database_dir,study)). I also restarted R studio and closed and reopened all of my scripts to make sure that was not causing the problem.
Does anyone have any other suggestions for me to try?
Posting how I resolved the issue:
The script that changed the directory (I will call this script 2) was called by another script first (I will call this script 1). script 1 and script 2 are in the same directory, but different directories from where I where I was trying to change. script 1 called script 2 using source("script2.R"). When I changed this to source(file.path(work_dir, "script2.R")) I no longer had issues with the setwd() command. My GUESS is that when I changed directories Rstudio "forgot" what script it was supposed to be executing and that is why I got a "no file exists" error.
If anyone has any other thoughts - please share!