name = 'mcmc_',
mem = 3)
#LAUNCH EYEBALL JOBS
eyeball.launch()
#RETURN A LIST OF LAUNCHED JOBS
return dict(cmds=eyeball.cmds,
inputs = inp_dicts)
def run_single(run_id):
'''
Given an input dictionary containing a single paramater set
run mcmc in matlab using bs_macros.run_matlab.
'''
input_dict = butils.load_data(run_id,'input')
return bsm.runmat('run_mcmc', input_dict, run_id)
if __name__ == '__main__':
run_id = sys.argv[2]
run_func = globals()[sys.argv[1]]
output_dict = run_func(run_id)
if output_dict == None:
output_dict = {'blank':'Nothing output in call to {0}'.\
format(sys.argv[1])}
bsu.save_data( output_dict, run_id, 'output')
inp_dicts.append(dict(similarities=sims, self_similarity=percentile(sims.flatten(), p)))
else:
inp_dicts = butils.load_data(run_id, "input")
eyeball = bsub.eyeball(
run_id, os.path.abspath(inspect.stack()[0][1]), inp_dicts, func="test_bsubfun", name=run_id + "_test_", mem=2
)
eyeball.launch()
eyeball.await()
eyeball.package()
eyeball.complete()
def usage():
print """
usage: bsub_clusters function run_id
Call function with run_id.
"""
exit(1)
if __name__ == "__main__":
run_id = sys.argv[2]
run_func = globals()[sys.argv[1]]
output_dict = run_func(run_id)
if output_dict == None:
output_dict = {"blank": "Nothing output in call to {0}".format(sys.argv[1])}
butils.save_data(output_dict, run_id, "output")
In any event, the family name is stored in the
input dict so there will be no problems running the
script is the run_id does not conform to this format.
'''
inp_dict = bsub.load_data(run_id, 'input')
inp_run_id = inp_dict['inp_run_id']
rfid = inp_dict['family']
output = tutils.run(rfid, run_id, inp_run_id, reset=True)
return output
def usage():
print '''
usage: rna_ali2d function run_id
Call function with run_id.
'''
exit(1)
if __name__ == '__main__':
run_id = sys.argv[2]
run_func = globals()[sys.argv[1]]
output_dict = run_func(run_id)
if output_dict == None:
output_dict = {'blank':'Nothing output in call to {0}'.\
format(sys.argv[1])}
bsu.save_data(output_dict, run_id, 'output')
eyeball = bsub.eyeball(run_id,
os.path.abspath(inspect.stack()[0][1]),
inp_dicts,
func='test_bsubfun',
name=run_id + '_test_',
mem=2)
eyeball.launch()
eyeball. await ()
eyeball.package()
eyeball.complete()
def usage():
print '''
usage: bsub_clusters function run_id
Call function with run_id.
'''
exit(1)
if __name__ == '__main__':
run_id = sys.argv[2]
run_func = globals()[sys.argv[1]]
output_dict = run_func(run_id)
if output_dict == None:
output_dict = {'blank':'Nothing output in call to {0}'.\
format(sys.argv[1])}
butils.save_data(output_dict, run_id, 'output')