def example3():
widgets = [Bar('>'), ' ', ETA(), ' ', ReverseBar('<')]
pbar = ProgressBar(widgets=widgets, maxval=10000000).start()
for i in range(1000000):
# do something
pbar.update(10*i+1)
pbar.finish()
def example1():
widgets = ['Test: ', Percentage(), ' ', Bar(marker=RotatingMarker()),
' ', ETA(), ' ', FileTransferSpeed()]
pbar = ProgressBar(widgets=widgets, maxval=10000000).start()
for i in range(1000000):
# do something
pbar.update(10*i+1)
pbar.finish()
def example15():
# You may need python 3.x to see this correctly
try:
widgets = ['Wheels: ', AnimatedMarker(markers='◐◓◑◒')]
pbar = ProgressBar(widgets=widgets)
for i in pbar((i for i in range(24))):
time.sleep(0.3)
except UnicodeError:
sys.stdout.write('Unicode error: skipping example')
def example17():
widgets = [
FormatLabel('Animated Bouncer: value %(value)d - '),
BouncingBar(marker=RotatingMarker())
]
pbar = ProgressBar(widgets=widgets)
for i in pbar((i for i in range(180))):
time.sleep(0.05)
def example4():
widgets = ['Test: ', Percentage(), ' ',
Bar(marker='0',left='[',right=']'),
' ', ETA(), ' ', FileTransferSpeed()]
pbar = ProgressBar(widgets=widgets, maxval=500)
pbar.start()
for i in range(100,500+1,50):
time.sleep(0.2)
pbar.update(i)
pbar.finish()
def example3():
widgets = [Bar('>'), ' ', ETA(), ' ', ReverseBar('<')]
pbar = ProgressBar(widgets=widgets, maxval=10000000).start()
for i in range(1000000):
# do something
pbar.update(10 * i + 1)
pbar.finish()
def example4():
widgets = [
'Test: ',
Percentage(), ' ',
Bar(marker='0', left='[', right=']'), ' ',
ETA(), ' ',
FileTransferSpeed()
]
pbar = ProgressBar(widgets=widgets, maxval=500)
pbar.start()
for i in range(100, 500 + 1, 50):
time.sleep(0.2)
pbar.update(i)
pbar.finish()
def __init__(self, args, unknown_args):
self.args = args
self.unknown_args = unknown_args
self.option = checkInput(args)
#
env.logger = getLogger(max(min(args.verbosity - 1, 2), 0),
fn=os.path.splitext(args.output[0])[0],
fv=2 if args.verbosity is not 0 else 0)
env.logger.debug('\n{0}\n{1}\n{0}'.format(
"=" * min(len(args.cmd), 100), args.cmd))
self.logger = env.logger.info if args.verbosity != 1 else printinfo
#
self.logger('Loading data from [{}] ...'.format(args.data))
if self.option == 1:
self.file = SFSFile(args.data)
else:
self.file = GFile(args.data)
self.groups = self.file.getnames()
self.logger('{:,d} units found'.format(len(self.groups)))
# load non-missing data
# to annotate to each variant position wether or not it is missing from assocation analysis
# name it chip_file because it mimics the behavior of exome chip design
if args.missing_unlisted:
self.chip_file = SFSFile(args.missing_unlisted)
else:
self.chip_file = None
# set limit
if self.args.limit:
self.limit = min(max(1, args.limit), len(self.groups))
self.logger('{:,d} units will be analyzed'.format(self.limit))
else:
self.limit = len(self.groups)
self.result = ResultManager(args.output,
action='w' if not args.append else 'a')
if self.args.verbosity == 1:
# widgets = [FormatLabel('scanning: unit %(value)d - '), BouncingBar(marker=RotatingMarker())]
widgets = [
FormatLabel('scanning: unit %(value)d - '),
Percentage(), ' ',
Bar('>'), ' ',
ETA()
]
self.pbar = ProgressBar(widgets=widgets,
maxval=self.limit,
term_width=get_terminal_size()[0] -
5).start()
else:
# use each group's progress bar or not progress bar at all
self.pbar = ProgressBarNull()
# this is buffer object to hold all input dict to a list
self.data_buffer = [] if self.args.replicates < 0 else None
def run(self):
'''run multiple replicates'''
if self.data['verbosity'] <= 1:
iterations = range(self.data['replicates'])
else:
widgets = [
'{0} : '.format(self.data['name']),
Percentage(), ' ',
Bar('='), ' ',
ETA()
]
pbar = ProgressBar(widgets=widgets,
maxval=self.data['replicates'],
term_width=get_terminal_size()[0] - 5)
iterations = pbar((i for i in range(self.data['replicates'])))
nJobs = max(min(self.data['jobs'], self.data['replicates']), 1)
workQueue = Queue()
resQueue = Queue()
# put all replicates + stop signals in queue
for replicate in range(self.data['replicates']):
workQueue.put(replicate)
for i in range(nJobs):
workQueue.put(None)
# spawn workers
procs = [
Process(target=self.calculate, args=(workQueue, resQueue))
for j in range(nJobs)
]
for p in procs:
p.start()
# collect the results off the queue
for i in iterations:
try:
self.__save(resQueue.get())
except KeyboardInterrupt as e:
raise ValueError("calculator terminated!")
for p in procs:
p.join()
if self.failure_count.value():
env.logger.info("{} invalid replicate(s)".format(
self.failure_count.value()))
self.data['replicates'] = self.data[
'replicates'] - self.failure_count.value()
return {} if len(self.result) == 0 else dict(
list(self.data.items()) + list(self.result.items()))
def example1():
widgets = [
'Test: ',
Percentage(), ' ',
Bar(marker=RotatingMarker()), ' ',
ETA(), ' ',
FileTransferSpeed()
]
pbar = ProgressBar(widgets=widgets, maxval=10000000).start()
for i in range(1000000):
# do something
pbar.update(10 * i + 1)
pbar.finish()
def example2():
class CrazyFileTransferSpeed(FileTransferSpeed):
"It's bigger between 45 and 80 percent"
def update(self, pbar):
if 45 < pbar.percentage() < 80:
return 'Bigger Now ' + FileTransferSpeed.update(self,pbar)
else:
return FileTransferSpeed.update(self,pbar)
widgets = [CrazyFileTransferSpeed(),' <<<', Bar(), '>>> ',
Percentage(),' ', ETA()]
pbar = ProgressBar(widgets=widgets, maxval=10000000)
# maybe do something
pbar.start()
for i in range(2000000):
# do something
pbar.update(5*i+1)
pbar.finish()
def example2():
class CrazyFileTransferSpeed(FileTransferSpeed):
"It's bigger between 45 and 80 percent"
def update(self, pbar):
if 45 < pbar.percentage() < 80:
return 'Bigger Now ' + FileTransferSpeed.update(self, pbar)
else:
return FileTransferSpeed.update(self, pbar)
widgets = [
CrazyFileTransferSpeed(), ' <<<',
Bar(), '>>> ',
Percentage(), ' ',
ETA()
]
pbar = ProgressBar(widgets=widgets, maxval=10000000)
# maybe do something
pbar.start()
for i in range(2000000):
# do something
pbar.update(5 * i + 1)
pbar.finish()
def example6():
pbar = ProgressBar().start()
for i in range(100):
time.sleep(0.01)
pbar.update(i + 1)
pbar.finish()
def example5():
pbar = ProgressBar(widgets=[SimpleProgress()], maxval=17).start()
for i in range(17):
time.sleep(0.2)
pbar.update(i + 1)
pbar.finish()
def example5():
pbar = ProgressBar(widgets=[SimpleProgress()], maxval=17).start()
for i in range(17):
time.sleep(0.2)
pbar.update(i + 1)
pbar.finish()
def example6():
pbar = ProgressBar().start()
for i in range(100):
time.sleep(0.01)
pbar.update(i + 1)
pbar.finish()
def example7():
pbar = ProgressBar() # Progressbar can guess maxval automatically.
for i in pbar(range(80)):
time.sleep(0.01)
def example0():
pbar = ProgressBar(widgets=[Percentage(), Bar()], maxval=300).start()
for i in range(300):
time.sleep(0.01)
pbar.update(i+1)
pbar.finish()
def example8():
pbar = ProgressBar(maxval=80) # Progressbar can't guess maxval.
for i in pbar((i for i in range(80))):
time.sleep(0.01)
def example9():
pbar = ProgressBar(widgets=['Working: ', AnimatedMarker()])
for i in pbar((i for i in range(50))):
time.sleep(.08)
def example0():
pbar = ProgressBar(widgets=[Percentage(), Bar()], maxval=300).start()
for i in range(300):
time.sleep(0.01)
pbar.update(i + 1)
pbar.finish()
def example10():
widgets = ['Processed: ', Counter(), ' lines (', Timer(), ')']
pbar = ProgressBar(widgets=widgets)
for i in pbar((i for i in range(150))):
time.sleep(0.1)
def example16():
widgets = [FormatLabel('Bouncer: value %(value)d - '), BouncingBar()]
pbar = ProgressBar(widgets=widgets)
for i in pbar((i for i in range(180))):
time.sleep(0.05)
def example11():
widgets = [FormatLabel('Processed: %(value)d lines (in: %(elapsed)s)')]
pbar = ProgressBar(widgets=widgets)
for i in pbar((i for i in range(150))):
time.sleep(0.1)
def example12():
widgets = ['Balloon: ', AnimatedMarker(markers='.oO@* ')]
pbar = ProgressBar(widgets=widgets)
for i in pbar((i for i in range(24))):
time.sleep(0.3)
