def biosystem_update_cache(biosystem, record):
"""
This function will check and update the biosystem
:param record - The record of simulation :
"""
# Auto cache size control.
if not os.path.exists("../cache"):
os.mkdir("../cache")
# There may be IO-async Error, rare but once happened
try:
cache_files = os.listdir('../cache')
dir_size = sum(map(os.path.getsize, cache_files))
cache_files_size = map(os.path.getsize, cache_files)
sdict = dict([[cache_files[i], cache_files_size[i]] for i in range(len(cache_files))])
if DEBUG:
print debug_info('size of cache'), dir_size
cache_files.sort(cache_files, key=lambda x:sdict[x])
while dir_size > 100 * 1000 * 1000:
os.remove(cache_files[0])
del cache_files[0]
except OSError:
pass
# our algorithm
network_hash = BioSystemNetwork(biosystem).network_hash
f_name = '../cache/%d.json' % network_hash
if not os.path.exists(f_name):
fp = open(f_name, 'w+')
json.dump(record, fp)
fp.close()
def compare_biosystem(biosystem1, biosystem2):
"""
Compare two biosystem. If same return True otherwise False
"""
if biosystem1['system_parameter']['time'] != biosystem2['system_parameter']['time']:
return False
list1, list2 = map(hash_gates_and_simulation, (biosystem1, biosystem2))
if DEBUG:
print debug_info(), list1, list2
if sorted(list1) != sorted(list2):
return False
net1, net2 = map(BioSystemNetwork, (biosystem1, biosystem2))
return sorted(net1.reaction_lines_hash) == sorted(net2.reaction_lines_hash)
def __init__(self, biosystem):
self.vertex = self.reconstruct_arcs(biosystem)
if DEBUG:
print debug_info('reconstructed_arcs'), self.vertex
self.reaction_lines = []
self.resolve_biosystem_net(self.vertex)
if DEBUG:
print debug_info('BioNetwork_lines'), self.reaction_lines
self.reaction_lines_hash = hash_list(self.reaction_lines)
if DEBUG:
print debug_info('BioNetwork_lines_hash'), self.reaction_lines_hash
self.network_hash = hash(dump_ord(sorted(self.reaction_lines_hash))) + biosystem['system_parameter']['time']
if DEBUG:
print debug_info('BioNetwork_hash'), self.network_hash
def test_reaction(self):
print debug_info('Test self')
print hash_list([{'a': 43.5}, {46: '77y'}, {65.6: 7}])
hash_string_list(['zhang hao', 'cuitianyi', 'zhuangsiyuan'])
self.assertEqual(hash_dict({1: 2, 3: 4}), hash_dict({3: 4, 1: 2}))
