def test_runtime_3(self):
sw = StopWatch()
sw.start()
time.sleep(2)
assert round(sw.time) == 2.0
time.sleep(2)
assert round(sw.time) == 4.0
def test_stop_1(self):
sw = StopWatch()
sw.start()
time.sleep(1)
sw.stop()
assert not sw.running
assert round(sw.time) == 1.0
def test_reset_1(self):
sw = StopWatch()
sw.start()
time.sleep(2)
sw.stop()
assert round(sw.time) == 2.0
sw.reset()
assert round(sw.time) == 0.0
def test_lap_3(self):
sw = StopWatch()
sw.start()
time.sleep(1)
assert round(sw.lap.time) == 1.0
time.sleep(3)
assert round(sw.lap.time) == 3.0
assert sw[0].nlaps == 2
def test_context_3(self):
with StopWatch() as sw:
time.sleep(3)
sw.stop()
time.sleep(2)
sw.start()
time.sleep(1)
assert round(sw.time) == 4.0
assert [round(interval.time)
for interval in sw.intervals] == [3.0, 1.0]
def test_runtime_5(self):
sw = StopWatch()
sw.start()
time.sleep(2)
time.sleep(1)
sw.stop()
time.sleep(2)
sw.start()
time.sleep(1)
sw.stop()
assert round(sw.time) == 4.0
def test_stop_2(self):
sw = StopWatch()
sw.start()
time.sleep(1)
sw.stop()
assert round(sw.time) == 1.0
time.sleep(1)
sw.start()
time.sleep(2)
sw.stop()
assert round(sw.time) == 3.0
assert sw.nintervals == 2
def main():
"""SIMBAD database creation function"""
p = create_db_argparse()
args = p.parse_args()
global logger
log_class = simbad.command_line.LogController()
log_class.add_console(level=args.debug_lvl)
logger = log_class.get_logger()
simbad.command_line.print_header()
stopwatch = StopWatch()
stopwatch.start()
if args.which == "lattice":
create_lattice_db(args.latt_db)
elif args.which == "contaminant":
create_contaminant_db(args.cont_db,
args.add_morda_domains,
nproc=args.nproc,
submit_qtype=args.submit_qtype,
submit_queue=args.submit_queue)
elif args.which == "morda":
create_morda_db(args.simbad_db,
nproc=args.nproc,
submit_qtype=args.submit_qtype,
submit_queue=args.submit_queue,
chunk_size=args.chunk_size)
elif args.which == "ensemble":
create_ensemble_db(args.ensemble_db,
pdb_db=args.pdb_db,
nproc=args.nproc,
submit_qtype=args.submit_qtype,
submit_queue=args.submit_queue,
chunk_size=args.chunk_size)
elif args.which == "custom":
create_db_custom(args.input_db, args.custom_db)
elif args.which == "validate":
if os.path.isdir(args.database):
validate_compressed_database(args.database)
else:
logger.critical("Unable to validate the following database: %s",
args.database)
stopwatch.stop()
logger.info(
"Database creation completed in %d days, %d hours, %d minutes, and %d seconds",
*stopwatch.time_pretty)
log_class.close()
def test_lap_4(self):
sw = StopWatch()
sw.start()
time.sleep(1)
assert round(sw.lap.time) == 1.0
time.sleep(3)
assert round(sw.lap.time) == 3.0
sw.stop()
time.sleep(1)
sw.start()
time.sleep(2)
assert round(sw.lap.time) == 2.0
sw.stop()
assert sw.nintervals == 2
assert sw[0].nlaps == 2
assert sw[1].nlaps == 1
def test_start_1(self):
assert StopWatch().time == 0
def test_lap_1(self):
assert StopWatch().lap is None
def test_context_2(self):
with StopWatch() as sw:
time.sleep(3)
sw.stop()
time.sleep(2)
assert round(sw.time) == 3.0
def test_context_1(self):
with StopWatch() as sw:
time.sleep(3)
assert round(sw.time) == 3.0
def test_convert_2(self):
sw = StopWatch()
sw.start()
time.sleep(5)
sw.stop()
assert sw.time_pretty == (0, 0, 0, 5)
def test_start_2(self):
sw = StopWatch()
sw.start()
assert sw.running
time.sleep(1)
assert round(sw.time) == 1.0