Lesson 1. UNIX and Linux.

Exercise 1.
Open a terminal. Create a new directory, say "test" (mkdir). Create another directory "test2". Change into the new directory "test". Create a new file (using emacs, touch, or echo). Move the file to the test2 directory. Copy the file back from test2 to test. Remove the file from the test directory. Remove the test directory. etc. 

Exercise 2. 
Use the ps command to list processes that belong to you.

Exercise 3.
Run the command 'sleep 300'. Interrupt the program (Control-Z). Put it in the background. Display all the running jobs. Run another command (say, 'sleep 500') and put it directly in the background (using the ampersand). List the running jobs. Use 'top' and 'ps' to list the running jobs. Put the first job in the foreground. Terminate the foreground job. List all processes in the system using ps (do a 'man ps' for all the options) etc.

Exercise 4. 
Download a BLAST report from the ftp site (ftp://ftp.solgenomics.net/bioinfo_class/lesson1/data/petunia.self.m8 ). How many lines are in the report? How many different (unique) identifiers are in the first column? How many different unique identifiers are in the second column? Which identifier occurs most often in column 1? How often does the identifier SGN-U209306 occur in the file? How often in column 1? How often in column 2? Can you explain these numbers?

Exercise 5. 
What does the command df do? Use the df command.