def start_workers(self):
global first_try
timer.start('work.start.workers')
started_worker_cnt = 0
slots = self.wq.hungry()
if slots == 100:
slots = 20
#if slots>0 and slots<25:
# slots = 25
batch = db.task_claim(slots)
if batch:
sys.stdout.write('.')
sys.stdout.flush()
calls = db.task_get(batch)
for call in calls:
self.execute(call)
started_worker_cnt += 1
elif len(self.workers) == 0 and db.task_cnt() == 0:
time.sleep(5)
sys.stdout.write(',')
sys.stdout.flush()
timer.report()
return -1
#sys.exit(0)
self.total_tasks += started_worker_cnt
timer.stop('work.start.workers')
return started_worker_cnt
def finish_workers(self):
timer.start('work.finish.workers')
finished_worker_cnt = 0
t = self.wq.wait(10)
if t:
worker = self.workers[t.id]
print "WQ execution (%s) completed in %s: %s (return code %d)" % (
worker.call.cbid, worker.sandbox, worker.call.body['cmd'],
t.return_status)
if t.return_status != 0:
self.fails.append(worker.call)
if worker.debug(t):
self.wq.blacklist(t.host)
node = self.db.fetch(worker.call.key)
self.execute(node.obj)
else:
worker.finish()
self.worker_cnt -= 1
del self.workers[t.id]
db.task_del(worker.call.cbid)
timer.stop('work.finish.workers')
return finished_worker_cnt
def update_b3(self, c, hypothetical=False):
timer.start("update b3")
if len(c) == 1:
self.p_den -= 1
self.p_num -= self.ps[c[0]]
self.r_num -= self.rs[c[0]]
self.ps[c[0]] = 0
self.rs[c[0]] = 0
else:
intersect_counts = Counter()
for m in c:
if m in self.mention_to_gold:
intersect_counts[self.mention_to_gold[m]] += 1
for m in c:
if m in self.mention_to_gold:
self.p_num -= self.ps[m]
self.r_num -= self.rs[m]
g = self.mention_to_gold[m]
ic = intersect_counts[g]
self.p_num += ic / float(len(c))
self.r_num += ic / float(len(g))
if not hypothetical:
self.ps[m] = ic / float(len(c))
self.rs[m] = ic / float(len(g))
timer.stop("update b3")
def link(self, m1, m2, hypothetical=False, beta=1):
timer.start("link")
if m1 == -1:
return self.get_f1(beta=beta) if hypothetical else None
c1, c2 = self.mention_to_cluster[m1], self.mention_to_cluster[m2]
assert c1 != c2
new_c = c1 + c2
p_num, r_num, p_den, r_den = self.p_num, self.r_num, self.p_den, self.r_den
if len(c1) == 1:
self.p_den += 1
if len(c2) == 1:
self.p_den += 1
self.update_b3(new_c, hypothetical=hypothetical)
if hypothetical:
f1 = evaluation.f1(self.p_num,
self.p_den,
self.r_num,
self.r_den,
beta=beta)
self.p_num, self.r_num, self.p_den, self.r_den = p_num, r_num, p_den, r_den
timer.stop("link")
return f1
else:
self.ana_to_ant[m2] = m1
self.ant_to_anas[m1].append(m2)
self.clusters.remove(c1)
self.clusters.remove(c2)
self.clusters.append(new_c)
for m in new_c:
self.mention_to_cluster[m] = new_c
timer.stop("link")
def unlink(self, m):
timer.start("unlink")
old_ant = self.ana_to_ant[m]
if old_ant != -1:
self.ana_to_ant[m] = -1
self.ant_to_anas[old_ant].remove(m)
old_c = self.mention_to_cluster[m]
c1 = [m]
frontier = self.ant_to_anas[m][:]
while len(frontier) > 0:
m = frontier.pop()
c1.append(m)
frontier += self.ant_to_anas[m]
c1 = tuple(c1)
c2 = tuple(m for m in old_c if m not in c1)
self.update_b3(c1)
self.update_b3(c2)
self.clusters.remove(old_c)
self.clusters.append(c1)
self.clusters.append(c2)
for m in c1:
self.mention_to_cluster[m] = c1
for m in c2:
self.mention_to_cluster[m] = c2
timer.stop("unlink")
def unlink(self, m):
timer.start("unlink")
old_ant = self.ana_to_ant[m]
if old_ant != -1:
self.ana_to_ant[m] = -1
self.ant_to_anas[old_ant].remove(m)
old_c = self.mention_to_cluster[m]
c1 = [m]
frontier = self.ant_to_anas[m][:]
while len(frontier) > 0:
m = frontier.pop()
c1.append(m)
frontier += self.ant_to_anas[m]
c1 = tuple(c1)
c2 = tuple(m for m in old_c if m not in c1)
self.update_b3(c1)
self.update_b3(c2)
self.clusters.remove(old_c)
self.clusters.append(c1)
self.clusters.append(c2)
for m in c1:
self.mention_to_cluster[m] = c1
for m in c2:
self.mention_to_cluster[m] = c2
timer.stop("unlink")
def link(self, m1, m2, hypothetical=False, beta=1):
timer.start("link")
if m1 == -1:
return self.get_f1(beta=beta) if hypothetical else None
c1, c2 = self.mention_to_cluster[m1], self.mention_to_cluster[m2]
assert c1 != c2
new_c = c1 + c2
p_num, r_num, p_den, r_den = self.p_num, self.r_num, self.p_den, self.r_den
if len(c1) == 1:
self.p_den += 1
if len(c2) == 1:
self.p_den += 1
self.update_b3(new_c, hypothetical=hypothetical)
if hypothetical:
f1 = evaluation.f1(self.p_num, self.p_den, self.r_num, self.r_den, beta=beta)
self.p_num, self.r_num, self.p_den, self.r_den = p_num, r_num, p_den, r_den
timer.stop("link")
return f1
else:
self.ana_to_ant[m2] = m1
self.ant_to_anas[m1].append(m2)
self.clusters.remove(c1)
self.clusters.remove(c2)
self.clusters.append(new_c)
for m in new_c:
self.mention_to_cluster[m] = new_c
timer.stop("link")
def run_agent(self, s, beta=0, iteration=1):
timer.start("running agent")
merged_pairs = []
while not s.is_complete():
example = s.get_example(self.training)
n_candidates = example['starts'].size + 1
if self.training:
self.replay_memory.update(example)
if random.random() > beta:
if iteration == -1:
i = n_candidates - 1
else:
timer.start("predict")
scores = self.model.predict_on_batch(example)[0]
if self.training:
self.loss_aggregator.update(
np.sum(scores * example['costs']))
i = np.argmax(scores[:, 0])
timer.stop("predict")
else:
i = np.argmin(example['costs'][:, 0])
if i != n_candidates - 1:
merged_pairs.append(
(s.candidate_antecedents[i], s.current_mention))
s.do_action(i)
timer.stop("running agent")
return merged_pairs
def task_prep( self, item ):
calls = []
timer.start('db.task.prep')
while True:
try:
conn, log = (self.tconn, self.tlog)
with conn:
# Check if task is already queued
curs = conn.cursor()
curs.execute('SELECT cbid FROM todos WHERE next_arg IN (?,?)', (item.cbid, item.dbid,) )
res = curs.fetchall()
for r in res:
call = self.find_one( r['cbid'] )
if call:
# Update next_arg for task
self.task_update( call )
except sqlite3.OperationalError:
print 'Database (todos) is locked on task_prep'
time.sleep(1)
continue
break
timer.stop('db.task.prep')
return calls
def hashstring(str):
timer.start('utils.hashstring')
key = hashlib.sha1()
key.update(str)
key = key.hexdigest()
timer.stop('utils.hashstring')
return key
def start_workers( self ):
global first_try
timer.start('work.start.workers')
started_worker_cnt = 0
slots = glob.exec_local_concurrency - len(self.workers)
batch = db.task_claim( slots )
sys.stdout.write('.')
sys.stdout.flush()
if batch:
calls = db.task_get( batch )
for call in calls:
self.execute( call )
started_worker_cnt += 1
elif len(self.workers)==0 and db.task_remain( glob.workflow_id )==0 and self.total_tasks>0:
timer.report()
return -2
#sys.exit(0)
if first_try:
if started_worker_cnt==0:
print 'Nothing to execute.'
timer.report()
return -1
#sys.exit(0)
first_try = False
self.total_tasks += started_worker_cnt
timer.stop('work.start.workers')
return started_worker_cnt
def finish_workers( self ):
timer.start('work.finish.workers')
finished_worker_cnt = 0
for k, worker in enumerate( self.workers ):
if worker.process.poll() is not None:
(stdout, stderr) = worker.process.communicate()
print "Local execution complete (%s): %s (return code %d)" % (worker.call.cbid, worker.call.body['cmd'], worker.process.returncode)
finished_worker_cnt += 1
if worker.process.returncode != 0:
if len(stdout)>0:
d( 'exec', 'stdout:\n', stdout )
if len(stderr)>0:
d( 'exec', 'stderr:\n', stderr )
else:
if len(stdout)>0:
print 'stdout:\n', stdout
if len(stderr)>0:
print 'stderr:\n', stderr
worker.finish()
del self.workers[k]
db.task_del( worker.call.cbid )
timer.stop('work.finish.workers')
return finished_worker_cnt
def finish_workers(self):
timer.start('work.finish.workers')
finished_worker_cnt = 0
for k, worker in enumerate(self.workers):
if worker.process.poll() is not None:
(stdout, stderr) = worker.process.communicate()
print "\nLocal execution complete (%s): %s (return code %d)" % (
worker.call.cbid, worker.call.body['cmd'],
worker.process.returncode)
finished_worker_cnt += 1
if worker.process.returncode != 0:
if len(stdout) > 0:
d('exec', 'stdout:\n', stdout)
if len(stderr) > 0:
d('exec', 'stderr:\n', stderr)
else:
if len(stdout) > 0:
print 'stdout:\n', stdout
if len(stderr) > 0:
print 'stderr:\n', stderr
worker.finish()
del self.workers[k]
db.task_del(worker.call.cbid)
timer.stop('work.finish.workers')
return finished_worker_cnt
def finish_workers( self ):
timer.start('work.finish.workers')
finished_worker_cnt = 0
t = self.wq.wait(10)
if t:
worker = self.workers[t.id]
print "WQ execution (%s) completed in %s: %s (return code %d)" % (worker.call.cbid, worker.sandbox, worker.call.body['cmd'], t.return_status)
if t.return_status != 0:
self.fails.append( worker.call )
if worker.debug( t ):
self.wq.blacklist( t.host )
node = self.db.fetch( worker.call.key )
self.execute( node.obj )
else:
worker.finish()
self.worker_cnt -= 1
del self.workers[t.id]
db.task_del( worker.call.cbid )
timer.stop('work.finish.workers')
return finished_worker_cnt
def start_workers(self):
global first_try
timer.start('work.start.workers')
started_worker_cnt = 0
slots = glob.exec_local_concurrency - len(self.workers)
batch = db.task_claim(slots)
sys.stdout.write('.')
sys.stdout.flush()
if batch:
calls = db.task_get(batch)
for call in calls:
self.execute(call)
started_worker_cnt += 1
elif len(self.workers) == 0 and db.task_remain(
glob.workflow_id) == 0 and self.total_tasks > 0:
timer.report()
return -2
#sys.exit(0)
if first_try:
if started_worker_cnt == 0:
print 'Nothing to execute.'
timer.report()
return -1
#sys.exit(0)
first_try = False
self.total_tasks += started_worker_cnt
timer.stop('work.start.workers')
return started_worker_cnt
def hashstring( str ):
timer.start('utils.hashstring')
key = hashlib.sha1()
key.update( str )
key = key.hexdigest()
timer.stop('utils.hashstring')
return key
def start_workers( self ):
global first_try
timer.start('work.start.workers')
started_worker_cnt = 0
slots = self.wq.hungry()
if slots==100:
slots = 20
#if slots>0 and slots<25:
# slots = 25
batch = db.task_claim( slots )
if batch:
sys.stdout.write('.')
sys.stdout.flush()
calls = db.task_get( batch )
for call in calls:
self.execute( call )
started_worker_cnt += 1
elif len(self.workers)==0 and db.task_cnt()==0:
time.sleep(5)
sys.stdout.write(',')
sys.stdout.flush()
timer.report()
return -1
#sys.exit(0)
self.total_tasks += started_worker_cnt
timer.stop('work.start.workers')
return started_worker_cnt
def task_get( self, batch ):
calls = []
timer.start('db.task.get')
while True:
try:
conn, log = (self.tconn, self.tlog)
with conn:
curs = conn.cursor()
curs.execute('SELECT cbid FROM todos WHERE assigned=?', (batch,) )
res = curs.fetchall()
for r in res:
call = self.find_one( r['cbid'] )
if call:
calls.append( call )
except sqlite3.OperationalError:
print 'Database (todos) is locked on task_get'
time.sleep(1)
continue
break
timer.stop('db.task.get')
return calls
def update_b3(self, c, hypothetical=False):
timer.start("update b3")
if len(c) == 1:
self.p_den -= 1
self.p_num -= self.ps[c[0]]
self.r_num -= self.rs[c[0]]
self.ps[c[0]] = 0
self.rs[c[0]] = 0
else:
intersect_counts = Counter()
for m in c:
if m in self.mention_to_gold:
intersect_counts[self.mention_to_gold[m]] += 1
for m in c:
if m in self.mention_to_gold:
self.p_num -= self.ps[m]
self.r_num -= self.rs[m]
g = self.mention_to_gold[m]
ic = intersect_counts[g]
self.p_num += ic / float(len(c))
self.r_num += ic / float(len(g))
if not hypothetical:
self.ps[m] = ic / float(len(c))
self.rs[m] = ic / float(len(g))
timer.stop("update b3")
def run_agent(self, s, beta=0, iteration=1):
timer.start("running agent")
merged_pairs = []
while not s.is_complete():
example = s.get_example(self.training)
n_candidates = example['starts'].size + 1
if self.training:
self.replay_memory.update(example)
if random.random() > beta:
if iteration == -1:
i = n_candidates - 1
else:
timer.start("predict")
scores = self.model.predict_on_batch(example)[0]
if self.training:
self.loss_aggregator.update(np.sum(scores * example['costs']))
i = np.argmax(scores[:, 0])
timer.stop("predict")
else:
i = np.argmin(example['costs'][:, 0])
if i != n_candidates - 1:
merged_pairs.append((s.candidate_antecedents[i], s.current_mention))
s.do_action(i)
timer.stop("running agent")
return merged_pairs
def connect( self ):
global dlog, clog
timer.start('db.connect')
self.dconn, dlog = self.sqlite3_connect(
glob.data_db_pathname, glob.data_log_pathname, 'data_db_logger', glob.data_file_directory )
self.cconn, clog = self.sqlite3_connect(
glob.cache_db_pathname, glob.cache_log_pathname, 'cache_db_logger', glob.cache_file_directory )
self.trconn, clog = self.sqlite3_connect(
glob.trash_db_pathname, glob.trash_log_pathname, 'trash_db_logger', glob.trash_file_directory )
self.tconn, self.tlog = self.sqlite3_connect( glob.work_db_pathname, glob.work_log_pathname )
db_init_str = """
CREATE TABLE IF NOT EXISTS items (
id INTEGER NOT NULL, type TEXT, cbid TEXT, dbid TEXT, wfid UUID, step TEXT,
"when" FLOAT, meta TEXT, body TEXT, repo UUID, path TEXT, size INTEGER,
PRIMARY KEY (id)
);
"""
db_init_todos = """
CREATE TABLE IF NOT EXISTS todos (
id INTEGER NOT NULL, cbid TEXT, wfid UUID, step TEXT, priority INTEGER DEFAULT 0,
next_arg TEXT, assigned TEXT, failures INTEGER DEFAULT 0,
PRIMARY KEY (id)
);
"""
curs = self.dconn.cursor()
curs.execute( db_init_str )
curs.execute( 'CREATE INDEX IF NOT EXISTS itcbids ON items(cbid);' )
curs.execute( 'CREATE INDEX IF NOT EXISTS itdbids ON items(dbid);' )
self.dconn.commit()
curs = self.cconn.cursor()
curs.execute( db_init_str )
curs.execute( 'CREATE INDEX IF NOT EXISTS itcbids ON items(cbid);' )
curs.execute( 'CREATE INDEX IF NOT EXISTS itdbids ON items(dbid);' )
self.cconn.commit()
curs = self.trconn.cursor()
curs.execute( db_init_str )
curs.execute( 'CREATE INDEX IF NOT EXISTS itcbids ON items(cbid);' )
curs.execute( 'CREATE INDEX IF NOT EXISTS itdbids ON items(dbid);' )
self.trconn.commit()
curs = self.tconn.cursor()
curs.execute( db_init_todos )
curs.execute( 'CREATE INDEX IF NOT EXISTS tdnext ON todos(next_arg, assigned);' )
self.tconn.commit()
self.tconn.isolation_level = 'EXCLUSIVE'
timer.stop('db.connect')
def evaluate_model(dataset, docs, model, model_props, stats, save_output=False, save_scores=False,
print_table=False):
prog = utils.Progbar(dataset.n_batches)
mt = RankingMetricsTracker(dataset.name, model_props=model_props) \
if model_props.ranking else ClassificationMetricsTracker(dataset.name)
mta = ClassificationMetricsTracker(dataset.name + " anaphoricity", anaphoricity=True)
docs_by_id = {doc.did: doc for doc in docs} if model_props.ranking else {}
saved_links, saved_scores = (defaultdict(list) if save_output else None,
defaultdict(dict) if save_scores else None)
for i, X in enumerate(dataset):
if X['y'].size == 0:
continue
progress = []
scores = model.predict_on_batch(X)
if model_props.ranking:
update_doc(docs_by_id[X['did']], X, scores,
saved_links=saved_links, saved_scores=saved_scores)
if model_props.anaphoricity and not model_props.ranking:
progress.append(("anaphoricity loss", mta.update(X, scores[0][:, 0])))
if not model_props.anaphoricity_only:
progress.append(("loss", mt.update(
X, scores if model_props.ranking else
scores[1 if model_props.anaphoricity else 0][:, 0])))
prog.update(i + 1, exact=progress)
if save_scores:
print "Writing scores"
utils.write_pickle(saved_scores, model_props.path + dataset.name + '_scores.pkl')
if save_output:
print "Writing output"
utils.write_pickle(saved_links, model_props.path + dataset.name + '_links.pkl')
utils.write_pickle(docs, model_props.path + dataset.name + '_processed_docs.pkl')
timer.start("metrics")
if model_props.ranking:
stats.update(compute_metrics(docs, dataset.name))
stats["validate time"] = time.time() - prog.start
if model_props.anaphoricity and not model_props.ranking:
mta.finish(stats)
if not model_props.anaphoricity_only:
mt.finish(stats)
timer.stop("metrics")
if print_table:
print " & ".join(map(lambda x: "{:.2f}".format(x * 100), [
stats[dataset.name + " muc precision"],
stats[dataset.name + " muc recall"],
stats[dataset.name + " muc"],
stats[dataset.name + " b3 precision"],
stats[dataset.name + " b3 recall"],
stats[dataset.name + " b3"],
stats[dataset.name + " ceafe precision"],
stats[dataset.name + " ceafe recall"],
stats[dataset.name + " ceafe"],
stats[dataset.name + " conll"],
]))
def space(event):
if event.char != " ":
return
if timer.run == False:
timer.run = True
time.sleep(0)
else:
timer.stop()
s.Gen()
def train(self):
timer.start("train")
X = self.memory.pop(int(random.random() * len(self.memory)))
self.train_on_example(X)
self.size -= 1
timer.stop("train")
if self.trainer.n == 1:
print "Start training!"
print
def load(self, data, pair_model, anaphoricity_model):
timer.start("pair model")
pair_features, self.pair_ids = data.vectorize_pairs(self.did, self.possible_pairs)
self.pair_vectors = run_static_model(pair_features, pair_model)
timer.stop("pair model")
timer.start("anaphoricity model")
mention_features, self.mention_ids = data.vectorize_mentions(self.did, self.mentions)
self.mention_vectors = run_static_model(mention_features, anaphoricity_model)
timer.stop("anaphoricity model")
def train(self):
timer.start("train")
X = self.memory.pop(int(random.random() * len(self.memory)))
self.train_on_example(X)
self.size -= 1
timer.stop("train")
if self.trainer.n == 1:
print "Start training!"
print
def dump( self, key, pathname ):
timer.start('db.dump')
item = self.find_one( key )
if not item:
print 'Not ready yet: %s' % key
else:
with open( pathname, 'w' ) as f:
item.stream_content( f )
timer.stop('db.dump')
def insert( self, item ):
timer.start('db.insert')
action_taken = 'exists'
if item.type == 'temp':
# This is an intermediate file, use the cache
if not self.exists_temp_dbid( item.dbid ):
conn, file_dir, log = (self.cconn, glob.cache_file_directory, clog)
action_taken = 'saved'
else:
# This is not intermediate data, don't use cache
if not self.exists_data( item ):
conn, file_dir, log = (self.dconn, glob.data_file_directory, dlog)
action_taken = 'saved'
if action_taken == 'saved':
if item.path:
new_pathname = file_dir + item.cbid
if not os.path.isfile( new_pathname ):
shutil.move( item.path, new_pathname )
item.path = item.cbid
ins, vals = item.sqlite3_insert()
#print ins
#print vals
while True:
try:
curs = conn.cursor()
curs.execute( ins, vals )
conn.commit()
except sqlite3.OperationalError:
print 'Database (todos) is locked on insert_exec'
time.sleep(1)
continue
break
self.task_prep( item )
if item.type == 'temp':
log.info('%s (%s) %s' % (item.cbid, item.dbid, action_taken))
else:
log.info('%s %s' % (item.cbid, action_taken))
timer.stop('db.insert')
#if glob.total_quota:
# self.keep_quota()
if action_taken == 'saved':
return True
else:
return False
def action_costs(self):
timer.start("costs")
costs = []
for ant in self.candidate_antecedents:
hypothetical_score = self.doc.link(ant, self.current_mention, hypothetical=True)
costs.append(hypothetical_score)
costs.append(self.get_f1())
timer.stop("costs")
costs = np.array(costs, dtype='float')
costs -= costs.max()
costs *= (len(self.doc.mention_to_gold) + len(self.doc.mentions)) / 100.0
return -costs[:, np.newaxis]
def stop(ID):
"""
Arrête une animation si elle est en pause ou en cours.
:param string ID: ID de l'objet dans ui.objects
"""
if animations[ID]["status"] != 0:
timer.stop(ID + "timer")
animations[ID]["step"] = 0
animations[ID]["status"] = 0
else:
print("Animation warning: cannot pause animation",
ID + ": animation already stopped")
def hashfile(fname, blocksize=65536):
timer.start('utils.hashfile')
key = hashlib.sha1()
afile = open(fname, 'rb')
buf = afile.read(blocksize)
length = len(buf)
while len(buf) > 0:
key.update(buf)
buf = afile.read(blocksize)
length += len(buf)
key = key.hexdigest()
timer.stop('utils.hashfile')
return key, length
def hashfile( fname, blocksize=65536 ):
timer.start('utils.hashfile')
key = hashlib.sha1()
afile = open( fname, 'rb' )
buf = afile.read( blocksize )
length = len( buf )
while len( buf ) > 0:
key.update( buf )
buf = afile.read( blocksize )
length += len( buf )
key = key.hexdigest()
timer.stop('utils.hashfile')
return key, length
def find_one( self, key ):
timer.start('db.find_one')
curs = self.dconn.cursor()
curs.execute("SELECT * FROM items WHERE cbid=? ORDER BY id DESC LIMIT 1", (key,) )
res = curs.fetchone()
if not res:
curs = self.cconn.cursor()
curs.execute('SELECT * FROM items WHERE cbid=? OR dbid=? ORDER BY id DESC LIMIT 1', (key, key,) )
res = curs.fetchone()
if res:
res = Item( res )
timer.stop('db.find_one')
return res
def keep_quota( self, quota_bytes ):
timer.start('db.keep_quota')
consumption = self.quota_status()
print '%i %i %i'%(time.time(), consumption, quota_bytes)
if consumption <= quota_bytes:
pass
#print 'Under Quota by:', (quota_bytes-consumption)
else:
over_consumption = consumption-quota_bytes
#print 'Over Quota by:', over_consumption
file_cnt = 0
while over_consumption>0:
try:
curs = self.cconn.cursor()
trcurs = self.trconn.cursor()
curs.execute('SELECT * FROM items ORDER BY id LIMIT 25;')
res = curs.fetchall()
timer.stop('db.keep_quota')
cbids = []
for r in res:
it = Item(r)
if it.dbid != '685aa1bae538a9f5dba28a55858467f82f5142a8:0':
#shutil.copy( glob.cache_file_directory+it.path, glob.trash_file_directory+it.path )
ins, dat = it.sqlite3_insert()
trcurs.execute( ins, dat )
cbids.append( it.cbid )
over_consumption -= it.size
if over_consumption <= 0:
break
self.trconn.commit()
print '# %i files put in the trash'%(len(cbids))
#timer.start('db.keep_quota')
for cbid in cbids:
pass
#print ' -'+cbid
curs.execute( "DELETE FROM items WHERE cbid=?;", (cbid,) )
self.cconn.commit()
except sqlite3.OperationalError:
print 'Database (cache) is locked on keep_quota'
time.sleep(1)
continue
file_cnt += len(cbids)
return file_cnt
def action_costs(self):
timer.start("costs")
costs = []
for ant in self.candidate_antecedents:
hypothetical_score = self.doc.link(ant,
self.current_mention,
hypothetical=True)
costs.append(hypothetical_score)
costs.append(self.get_f1())
timer.stop("costs")
costs = np.array(costs, dtype='float')
costs -= costs.max()
costs *= (len(self.doc.mention_to_gold) +
len(self.doc.mentions)) / 100.0
return -costs[:, np.newaxis]
def task_cnt( self ):
calls = []
timer.start('db.task.count')
conn, log = (self.tconn, self.tlog)
with conn:
try:
curs = conn.cursor()
curs.execute('SELECT count(id) as cnt FROM todos WHERE 1')
res = curs.fetchone()
timer.stop('db.task.count')
return int(res['cnt'])
except sqlite3.OperationalError:
return 1
def task_remain( self, wfid ):
calls = []
timer.start('db.task.remain')
conn, log = (self.tconn, self.tlog)
with conn:
try:
curs = conn.cursor()
curs.execute('SELECT id FROM todos WHERE wfid = ?', (glob.workflow_id,) )
res = curs.fetchall()
timer.stop('db.task.remain')
return len(res)
except sqlite3.OperationalError:
return 1
def exists_data( self, item ):
timer.start('db.exists_data')
while True:
try:
curs = self.dconn.cursor()
curs.execute('SELECT "when" FROM items WHERE cbid=?', (item.cbid,) )
when = curs.fetchone()
timer.stop('db.exists_data')
return when
except sqlite3.OperationalError:
print 'Database (todos) is locked on exists_data'
time.sleep(1)
continue
break
def train_all(self):
timer.start("train")
model_weights = self.model.get_weights()
prog = util.Progbar(len(self.memory))
random.shuffle(self.memory)
for i, X in enumerate(self.memory):
loss = self.train_on_example(X)
prog.update(i + 1, [("loss", loss)])
self.size = 0
self.memory = []
timer.stop("train")
weight_diffs = [(np.sum(np.abs(new_weight - old_weight)),
new_weight.size) for new_weight, old_weight in zip(
self.model.get_weights(), model_weights)]
summed = np.sum(map(np.array, weight_diffs), axis=0)
print "weight diffs", weight_diffs, summed
def find( self, key ):
timer.start('db.find')
curs = self.dconn.cursor()
curs.execute('SELECT * FROM items WHERE cbid=?', (key,) )
res = curs.fetchall()
if len(res)<=0:
curs = self.cconn.cursor()
curs.execute('SELECT * FROM items WHERE cbid=? OR dbid=?', (key, key,) )
res = curs.fetchall()
returns = []
for r in res:
returns.append( Item(r) )
timer.stop('db.find')
return returns
def train_all(self):
timer.start("train")
model_weights = self.model.get_weights()
prog = utils.Progbar(len(self.memory))
random.shuffle(self.memory)
for i, X in enumerate(self.memory):
loss = self.train_on_example(X)
prog.update(i + 1, [("loss", loss)])
self.size = 0
self.memory = []
timer.stop("train")
weight_diffs = [
(np.sum(np.abs(new_weight - old_weight)), new_weight.size)
for new_weight, old_weight in zip(self.model.get_weights(), model_weights)]
summed = np.sum(map(np.array, weight_diffs), axis=0)
print "weight diffs", weight_diffs, summed
def task_claim(self, count=1):
batch = uuid()
timer.start('db.task.claim')
while True:
try:
conn, log = (self.tconn, self.tlog)
with conn:
curs = conn.cursor()
if glob.wq_stage:
curs.execute(
'SELECT cbid FROM todos WHERE next_arg IS NULL AND assigned IS NULL AND step = ? LIMIT ?',
(glob.wq_stage, count))
else:
curs.execute(
'SELECT cbid FROM todos WHERE next_arg IS NULL AND assigned IS NULL ORDER BY id LIMIT ?',
(count, ))
res = curs.fetchall()
cbids = []
for r in res:
cbids.append(r['cbid'])
if len(cbids) > 0:
upd_str = 'UPDATE todos SET assigned = ? WHERE next_arg IS NULL AND assigned IS NULL AND cbid IN (%s);' % ', '.join(
'?' for c in cbids)
#print upd_str
#print [batch]+cbids
curs.execute(upd_str, [batch] + cbids)
conn.commit()
#log.info('%i tasks assigned' % ( len(res) ))
timer.stop('db.task.claim')
return batch
except sqlite3.OperationalError:
print traceback.format_exc()
print 'Database (todos) is locked on task_claim'
time.sleep(0.95)
continue
break
#timer.stop('db.task.claim')
return None
def make_requests(uuids, folder):
import json, timer
timer = timer.timer()
timer.start()
requests = [grequests.get(fmt.format(uuid)) for uuid in uuids]
responses = grequests.map(requests)
timer.print(current_indent + "time to do get requests: ")
written = 0
total = len(uuids)
exception_uuids = set()
for uuid, response in zip(uuids, responses):
try:
data = response.json()['data']
death_date = to_string(from_string(data['death_date']))
path = folder + "/" + death_date + "-" + uuid + ".json"
# write BOM
f = open(path, "wb")
f.write(codecs.BOM_UTF8)
f.close()
# write the actual data
f = open(path, "ab")
f.write(
json.dumps(data, ensure_ascii=False).encode(
"utf-8").decode().encode("utf-8"))
f.close()
written += 1
except Exception as e:
print(current_indent + "exception occurred on current batch.")
print(current_indent + "uuid causing the exception: " + uuid)
print(current_indent + str(e))
exception_uuids.add(uuid)
timer.stop()
timer.print(current_indent + "total time for current batch: ")
return written, exception_uuids
def task_add( self, call ):
timer.start('db.task.add')
while True:
try:
conn, log = (self.tconn, self.tlog)
with conn:
curs = conn.cursor()
# Check whether the output files already exist
outputs_exist = True
for i in range( 0, len(call.body['returns']) ):
dbid = call.cbid+':'+str(i)
if not glob.db.exists_temp_dbid( dbid ):
outputs_exist = False
break
if not outputs_exist:
# Check whether the task is already queued up
curs.execute('SELECT cbid FROM todos WHERE cbid=?', (call.cbid,) )
res = curs.fetchone()
if not res:
# Find the first needed argument that is not already available
next_arg = None
if 'args' in call.body and len(call.body['args'])>0:
for arg in call.body['args']:
if not glob.db.find( arg ):
next_arg = arg
break
ins = 'INSERT INTO todos (cbid, step, priority, next_arg) VALUES (?,?,0,?);'
curs.execute( ins, (call.cbid, call.step, next_arg) )
conn.commit()
log.info('%s added' % (call.cbid))
except sqlite3.OperationalError:
print 'Database (todos) is locked on task_add'
time.sleep(1)
continue
break
timer.stop('db.task.add')
def run( self ):
print 'Allocating %i local workers.' % glob.exec_local_concurrency
self.workers = []
while not glob.shutting_down:
timer.start('work')
finished_worker_cnt = self.finish_workers()
started_worker_cnt = self.start_workers()
if started_worker_cnt<0:
break
timer.stop('work')
if finished_worker_cnt == 0 and started_worker_cnt == 0:
time.sleep(1)
def get_model(train, vectors, model_props):
graph = build_graph(train, vectors, model_props)
opt = model_props.get_optimizer()
timer.start("compile")
loss = {}
if model_props.ranking:
loss['y'] = get_sum(train.scale_factor * (0.1 if model_props.reinforce else 1))
else:
if not model_props.anaphoricity_only:
loss['y'] = get_summed_cross_entropy(train.scale_factor)
if model_props.anaphoricity:
loss['anaphoricities'] = get_summed_cross_entropy(train.anaphoricity_scale_factor)
graph.compile(loss=loss, optimizer=opt)
timer.stop("compile")
if model_props.load_weights_from is not None:
set_weights(graph, model_props.load_weights_from, model_props.weights_file)
return graph, opt
def task_fail( self, call ):
timer.start('db.task.fail')
while True:
try:
conn, log = (self.tconn, self.tlog)
with conn:
curs = conn.cursor()
upd = 'UPDATE todos SET assigned=? WHERE cbid=?;'
curs.execute( upd, ('failed', call.cbid) )
conn.commit()
except sqlite3.OperationalError:
print 'Database (todos) is locked on task_update'
time.sleep(1)
continue
break
timer.stop('db.task.fail')
def task_claim( self, count=1 ):
batch = uuid()
timer.start('db.task.claim')
while True:
try:
conn, log = (self.tconn, self.tlog)
with conn:
curs = conn.cursor()
if glob.wq_stage:
curs.execute('SELECT cbid FROM todos WHERE next_arg IS NULL AND assigned IS NULL AND step = ? LIMIT ?', (glob.wq_stage,count) )
else:
curs.execute('SELECT cbid FROM todos WHERE next_arg IS NULL AND assigned IS NULL ORDER BY id LIMIT ?', (count,) )
res = curs.fetchall()
cbids = []
for r in res:
cbids.append(r['cbid'])
if len(cbids)>0:
upd_str = 'UPDATE todos SET assigned = ? WHERE next_arg IS NULL AND assigned IS NULL AND cbid IN (%s);' % ', '.join('?' for c in cbids)
#print upd_str
#print [batch]+cbids
curs.execute( upd_str, [batch]+cbids )
conn.commit()
#log.info('%i tasks assigned' % ( len(res) ))
timer.stop('db.task.claim')
return batch
except sqlite3.OperationalError:
print traceback.format_exc()
print 'Database (todos) is locked on task_claim'
time.sleep(0.95)
continue
break
#timer.stop('db.task.claim')
return None