Add output folder option for getMLST.py

[alegione]

Hi there, I added a bit of code to the getmlst.py script to add an option for an output folder. It should take all the downloaded files, and the log file, and put them in a folder, as well as make a text file with the delimiter (which I found useful when running bash loops, as I could use grep to pull out the appropriate delimiter). Honestly I have no experience with python, so this might need a look over, worked out the code just by reading what was already in the script. Hope it's useful, and thanks for all the programs your group produces