biseqt.util module

class biseqt.util.Logger(log_level=20, header='', f=None)

Bases: object

Creates an instance of Logger with the given verbosity level and optional header.

log(message, level=20)

Logs a message of given severity level.

class biseqt.util.ProgressIndicator(f=<open file '<stderr>', mode 'w'>, num_total=None, percentage=False)

Bases: object

Reports progress to the user:

>>> import time
>>> indic = ProgressIndicator(num_total=10)
>>> indic.start()
>>> for i in range(10):
...     indic.progress()
...     time.sleep(0.1)
>>> indic.finish()

f

file – An open file to which updates are writen.

num_total

int – Total number of expected steps; default is None in which case percentage reporting is not allowed and non-percentage reporting only shows the current count.

percentage

bool – Whether to show percentage progress instead of a running count; default is False.

write(contents)

start()

finish()

status()

progress(num=1)