PYTHONPATH

To run graphing graphics in Python:

flcellogrl@flcellogrl:~$ pip install matplotlib

Installing Python modules with virtualenv or pip:
http://www.bdnyc.org/2012/09/17/editing-pythonpath-to-import-modules/

Logical and neat directory structure will make your own, your computer’s and your collaborators’ lives much easier.

My recommendation: Create a master code directory (called “Modules” or something) in your Documents folder. This will be the new home of all your future Python projects.

http://deweylab.biostat.wisc.edu/rsem/README.html

Now every time you create a .py file, it should go into a project folder inside your Modules directory, i.e. /Documents/Modules/NewProject/MyModule.py. Note that you should have no actual modules inside your Modules directory! Keep those puppies in their warm, snuggly project subdirectories.

This way you can also initialize that project folder (i.e. /NewProject) as a Git repository and just push and pull the contents to keep it up-to-date!

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About Lisa Johnson

PhD candidate at UC Davis.
This entry was posted in Genomics Workshop, Python. Bookmark the permalink.

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