Here are some of the life savers that are not commonly introduced in standard bioinformatics curriculum. I think these toolkits encapsulate my understanding of the spirit of programming: there must be an easier way to do it.
To Compare directory and text files Although unfavorable, sometimes it happens that one project directory is duplicated and the progress of analysis differs between each other. The tools that I have found to be very helpful for comparing different directories and files so that you can merge the two directory into one and keep the most updated files from each folder is Meld.