readme file so output folder is part of repo

git does not track empty folders
renamed fxn name create_folders to create_folder

since it only really creates 1 folder
fixed type mutaion to mutation in update_init_file fxn
re-implement create_folder(), all batches in subfolder, returns sim_dir name
need string to write to config file
added 'd' to format string
append folder created to list_of_sim_names
moved list_of_sim_names list declaration
call update_init_file
uncomment code to run parallel simulations
ignore temp file