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
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
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'])