Hey thanks for the reply. I tried your method it worked, however now I get a compilation error. When I run the script in terminal using "perl script.pl" it runs fine and gives me the output, however now it's giving me a error "No data sets or points at /path/script.pl line 142"

Since I can't see your line 142, you should start debugging, maybe using print in your script.

I fixed the problem. So when I was executing the script the /path/ it doesnt load the data files opened by the script because I didnt have the path included to the data files in the script since I assumed they were in the same directory. However, I think the shell script executes the files from a different directory, so I just added

cd /pathofdirectory/
/pathofperl/perl /pathofscript/script.pl
[download]

and it worked. Thanks a lot though!

Ok, I figured out the problem and it's really weird. When I go into the directory using "cd" and execute the script from there "perl script.pl" it works. I just tried it on windows too. But whenever I try "perl /path/script.pl" it gives me that data set error.