unit_tests.py

# standard libraries

# nonstandard libraries

# homegrown libraries

# SAMPLE MODULE
from sample.sample import Sample
from sample.matter import Matter
from sample.sequence import Sequence
from sample.cell import Cell
from sample.solute import Solute
from sample.solution import Solution
from sample.buffer import Buffer 

# DATABASE MODULE
from database.database import Database

# PROTOCOL MODULE
from protocols.miniprep import Miniprep

# UNITS
#from units import sum_units


def main(mode = 0):

    if mode == 0:
        """ CURRENT FOCUS """
        
        print 'Loading database...'
        db = Database()

        # 
        plasmid = Sequence(name='MyPlasmid',mass='1 ug',sequence='ATCGGAGACTAGGCCATAGC',material='dsDNA')
        cell = Cell(name='DH5a',species='E. coli')
        cell.contents += [plasmid]

        # create dilution solution
        mybuffer = db.load('dH2O',volume = '50 uL')
        mybuffer.volume = '50 uL'

        # build sample
        sample = cell + mybuffer
        

        miniprep = Miniprep(db)
        output = miniprep.io({'sample':sample})
        print output['sample']

    if mode == 1:
        """ SAMPLE TESTING """
        sequence = Sequence(name='Plasmid1',sequence="ATCTAG")
        cell     = Cell(name='DH5a',species="E.Coli")
        solute   = Solute(name='Tris',mass ='100 g')
        solution = Solution(name='dH2O',volume='10 mL')

        sample  = Sample(container='10mL tube')

        sample += sequence
        sample += cell 
        sample += solute 
        sample += solution 

        print 'Cell+sequence:\n',cell+sequence
        print 'Sample:\n',sample

        sample.volume = '3 mL'

        print 'Sample (rv):\n',sample
    
    if mode == 2:
        """ DATABASE TESTING """
        db = Database()
        db.sync_local(overwrite=True)

        solution = db.load('dH2O',volume = (50,'uL'))
        solute   = db.load('Tris-Cl')
        cells    = db.load('DH5a')

        buff  = db.load('Buffer EB')



    return 




""" Unit tests """

if __name__ == "__main__":

    main()