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# Genenetwork2 specific methods and callback handler
#
# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl)
#
from __future__ import absolute_import, print_function, division
import numpy as np
import sys
import logging
# logging.basicConfig(level=logging.DEBUG)
# np.set_printoptions()
progress_location = None
progress_current = None
progress_prev_perc = None
def progress_default_func(location,count,total):
global progress_current
value = round(count*100.0/total)
progress_current = value
progress_func = progress_default_func
def progress_set_func(func):
global progress_func
progress_func = func
def progress(location, count, total):
global progress_location
global progress_prev_perc
perc = round(count*100.0/total)
if perc != progress_prev_perc and (location != progress_location or perc > 98 or perc > progress_prev_perc + 5):
progress_func(location, count, total)
logger.info("Progress: %s %d%%" % (location,perc))
progress_location = location
progress_prev_perc = perc
def mprint(msg,data):
"""
Array/matrix print function
"""
m = np.array(data)
print(msg,m.shape,"=\n",m)
def fatal(msg):
logger.critical(msg)
raise Exception(msg)
def callbacks():
return dict(
write = sys.stdout.write,
writeln = print,
debug = logger.debug,
info = logger.info,
warning = logger.warning,
error = logger.error,
critical = logger.critical,
fatal = fatal,
progress = progress,
mprint = mprint
)
def uses(*funcs):
"""
Some sugar
"""
return [callbacks()[func] for func in funcs]
# ----- Minor test cases:
if __name__ == '__main__':
# logging.basicConfig(level=logging.DEBUG)
logging.debug("Test %i" % (1))
d = callbacks()['debug']
d("TEST")
wrln = callbacks()['writeln']
wrln("Hello %i" % 34)
progress = callbacks()['progress']
progress("I am half way",50,100)
list = [0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15,
0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15,
0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15,
0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15,
0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15]
mprint("list",list)
matrix = [[1,0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15],
[2,0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15],
[3,0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15],
[4,0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15],
[5,0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15],
[6,0.5,0.6096595 , -0.31559815, -0.52793285, 1.16573418e-15]]
mprint("matrix",matrix)
ix,dx = uses("info","debug")
ix("ix")
dx("dx")
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