Add flags, update README

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-# aplus
+# aplus command line utility
 
-This is an aplus cli utility created for students at Florida Polytechnic University to submit their aplus codes through the CLI. 
+This is an cli utility initially created for students at Florida Polytechnic University to submit their aplus codes. 
 In time, we intend to generalize this utility to all universities.
 In the meantime however, any students from other universities wishing to use the utility may change the base_link and external_tools_code (you see this in the URL when you navigate to Aplus attendance within your course) variables.
 
 ## Usage
 
 ### List all courses and canvas course codes
-aplus
-aplus --list-courses
-aplus -l
+aplus --list-all
 
 ### List favorite courses and canvas course codes
 aplus --list-favorites
 
-### Enter code immediately for an active code
-aplus -c <code>
-aplus --code <code>
-
 ### Enter code for a specified course
-aplus -c <code> --course <course_code>
-aplus --code <code> --course <course_code>
\ No newline at end of file
+aplus --code <code> --course <canvas_course_number>
\ No newline at end of file