예제 #1
0
def generate_trees(folder):
    '''Takes a setup folder containing a list of names and sequence data,
        generates a distribution of trees.'''
    print "running job ", folder
    # Run stages 3 (alignment) and 4 (phylogeny)
    Stager.run_all(wd=folder, stages=['3', '4'], retry=retry)

    # Check with Dom that the data has also been written to disk at this point.
    return
예제 #2
0
def generate_trees(folder):
    '''Takes a setup folder containing a list of names and sequence data,
        generates a distribution of trees.'''
    print "running job ", folder
    # Run stages 3 (alignment) and 4 (phylogeny)
    Stager.run_all(wd=folder, stages=['3', '4'], retry=retry)

    # Check with Dom that the data has also been written to disk at this point.
    return
예제 #3
0
def run(folder):
    # get working directory
    wd = os.path.join(os.getcwd(), folder)
    # run stages 3 (alignment) and 4 (phylogeny)
    Stager.run_all(wd=wd, stages=['3', '4'])