2.**On the command line, loop through all fasta files starting with "ompA" using `var1`** and print the name to standard output.
* Once you type `for` and press `ENTER`, the shell will recognise the syntax and you can continue writing the for-loop line by line. It will evaluate the whole command only after you entered `done`.
3.**In your editor, write a simple script called `copy_and_rename.sh`.**
**Preparation:** It's easiest if you write your script locally and then transfer it via SFTP of your command line client (Termius/Notepad++) to the cluster into your `intro_to_unix` directory.
**For BBEdit users:** You can turn on syntax highlighting either by saving the file as a .sh file or by selecting "Unix Shell Script" in the drop-down menu at the very bottom (it says "Text file" by default).
**For Notepad++ users:** You can turn on syntax highlighting by selecting "shell" in the "Language" menu.
3.**In VSCode, write a simple script called `copy_and_rename.sh`.**
* Create an empty text file and save it into your `intro_to_unix` directory as `copy_and_rename.sh`.
* In a for loop, go through all fasta files starting with "ompA".
* Copy each fasta file. For the name of the new copy, replace "ompA" with "outerMembraneProteinA".
* Run the script from within your `intro_to_unix` folder.
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@@ -439,8 +434,10 @@
**Objective:** running software from singularity images and submitting jobs to Science Cluster
