Dear Carolina,

with editing func1 to func I meant that you would rename your func1 folder to func. That will be the easiest for now.

Since you are an ubuntu/linux beginner, I would suggest that you go through some unix/linux tutorials first. This will make further understanding of the scripts and how they work much easier. You can find some through google. Here is a good example:

http://www.ee.surrey.ac.uk/Teaching/Unix...

The error you are running into means: "command not found" and is caused by the fact that you just typed "batch_process.sh". Instead you will have to type "./batch_process.sh". That is because the commandline needs to know where the script is that you want to run. In this case it is where you are, which is in unix indicated by the .

I would also suggest you to rename your long scan names (e.g., 20100710_12333209971816fl3D1x1x1sagSUBJECTNC0001s003a001) to mprage and rest or so. This will be a lot easier later on.

Hang in there, practice makes perfect!
Maarten