def create_graph(args):
r = connection.Redis()
if args.xml:
log.info("Loading saved graph from file: %s" % args.xml)
@timeit
def load_graph(path):
return nx.Graph(nx.read_graphml(path))
graph, time_taken = load_graph(args.xml)
log.info("Graph loading complete in %0.2f seconds" % time_taken)
graphpath = args.xml
else:
graph = load_from_redis(r, args)
graphpath = args.reload
used_nodes = set()
# used_nodes will contain only the vertices that we want in the graph.
# However, it contains all of the edges between those vertices, not
# only those used in paths.
log.info("Populating sources for shortest path... ")
nodetypes = nx.get_node_attributes(graph, 'nodetype')
p = r.pipeline()
p.delete(SP_KEY)
p.delete(USED_KEY)
for node, nodetype in nodetypes.iteritems():
if nodetype in ('relay', 'client', 'dest'):
p.sadd(SP_KEY, node)
p.hset(TYPE_KEY, node, nodetype)
p.execute()
log.info(Color.wrap("[complete]", Color.OKGREEN))
log.info("Spawning 2 workers to process shortest paths... ")
timer = ProgressTimer(int(r.scard(SP_KEY)))
left = timer.total
timer.tick(1)
#pool = Pool(processes=12, initializer=thread_init,
#initargs=(graphpath, SP_KEY, TYPE_KEY, USED_KEY, PATH_KEY, ))
workers = []
for x in xrange(2):
p = multiprocessing.Process(
target=concurrent.thread_shortest_path,
args=(graphpath, SP_KEY, TYPE_KEY, USED_KEY, PATH_KEY, USED_KEY, ))
p.start()
workers.append(p)
while left > 0:
time.sleep(30)
timer.tick((timer.total - left) - timer.total_done)
sys.stderr.write(
"{0} Spawning workers to process shortest paths... {1}"
.format(Color.NEWL,
Color.wrapformat("[ETA: {0}]", Color.OKBLUE, timer.eta())))
left = r.scard(SP_KEY)
log.info("\nWaiting for jobs to terminate... ")
for job in workers:
p.join()
#pool.join()
log.info("Done")
used_nodes = r.smembers(USED_KEY)
if len(used_nodes) == 0:
raise RuntimeError('Saved zero nodes after processing')
core_graph = graph.subgraph(used_nodes)
to_remove = list()
def rev_tuple(tup):
return (tup[1], tup[0])
for edge in core_graph.edges_iter():
if (not r.sismember(PATH_KEY, edge) and
not r.sismember(PATH_KEY, rev_tuple(edge))):
to_remove.append(edge)
log.info("Kept %s vertices in the graph" % len(used_nodes))
log.info("Removed %s extraneous edges" % len(to_remove))
core_graph.remove_edges_from(to_remove)
log.info("Re-trimming graph")
#collapse_graph_in_place(graph)
log.info("Done")
log.info("Writing core graph... ")
nx.write_graphml(core_graph, "%s.xml" % args.save, prettyprint=True)
try:
nx.write_dot(core_graph, "%s.dot" % args.save)
except:
log.info("Failed to write dot graph")
log.info(Color.wrap("[complete]", Color.OKGREEN))
log.info("Cleaning up...")
pipelined_delete(r, TYPE_KEY, USED_KEY, PATH_KEY)
def load_from_redis(r, args):
"""
Create a igraph graph from redis
"""
log.info("Loading from Redis")
linkdict = LinkDict(r)
vertices = VertexList()
tor_vertices = set()
graphlinks = []
graphattrs = dict()
graphattrs['latency'] = []
stats = Stats({'non-pop-trim': int,
'unattachable-poi-count': int,
'poi-latency-defaulted': int,
'unattachable-poi': set,
'num-pois': int,
'num-pops': int,
'num-links': int,
'num-clients': int,
'client-connect-points': int})
pipe = r.pipeline()
i = 0
#Obtain the set of Tor relay IPs
log.info("Reading Tor relays from %s... " % args.pointsofinterest)
try:
with open(args.pointsofinterest) as f:
PoIs = json.load(f)
except IOError as e:
log.info("Error: [%s]" % e)
raise
log.info(Color.wrap("Done", Color.OKBLUE))
log.info("Attaching clients to graph.")
#Add clients
if args.num_clients:
clients_attached, client_attach_points = add_asn_endpoints(
vertices,
graphlinks,
args.client_data,
args.num_clients,
'client')
log.info("Attached {0} clients to {1} attachment points".format(
clients_attached, client_attach_points))
log.info("Attaching destinations to graph.")
#Add dests
if args.num_dests:
dests_attached, dest_attach_points = add_alexa_destinations(
vertices,
graphlinks,
args.num_dests)
log.info("Attached {0} dests to {0} attachment points".format(
dests_attached, dest_attach_points))
protected = set()
protected.update([poi['pop'] for poi in PoIs])
protected.update(vertices.keys())
# We want to trim all of the hanging edges of the graph.
log.info("Trimming degree-1 vertices...")
found_hanging_edge = True
pass_ctr = 0
while found_hanging_edge:
pass_ctr += 1
found_hanging_edge = False
removed = set()
n = 0
timer = ProgressTimer(len(linkdict))
for pop in linkdict.keys():
if n % 100 == 0 or n == timer.total - 1:
timer.tick(100)
sys.stderr.write(
"{0}Pass {1}: {2} {3}".format(
Color.NEWL,
pass_ctr,
Color.wrapformat("[{0} processed, {1} trimmed]",
Color.HEADER,
n, stats['non-pop-trim']),
Color.wrapformat("[eta:{0}]",
Color.OKGREEN,
timer.eta())
))
n += 1
if pop in removed:
continue # we saw this already
if len(linkdict[pop]) >= 2:
continue # it can stay
if pop in protected:
continue # We need relay/client/dest connect point
# It's only connected to one
connected = linkdict[pop].pop()
removed.add(pop)
del linkdict[pop]
linkdict[connected].remove(pop)
if len(linkdict[connected]) == 0:
# This was a matched pair attached to nothing else
del linkdict[connected]
removed.add(connected)
stats.incr('non-pop-trim')
found_hanging_edge = True
sys.stderr.write("\n")
linkdict.collapse_degree_two(protected=protected)
log.info("Trimmed {non-pop-trim} degree two hops".format(**stats))
#Set vertex id's for all of the pops we have links for.
log.info("Adding PoPs...")
for pop in linkdict.iterkeys():
if pop in vertices:
continue # we have this one already.
vertices.add_vertex(pop,
nodeid=pop,
nodetype='pop',
asn=r.get(dbkeys.POP.asn(pop)),
countries=r.smembers(dbkeys.POP.countries(pop)))
stats.incr('num-pops')
i += 1
log.info(Color.wrapformat("Added [{0}]", Color.OKBLUE, stats['num-pops']))
#Attach the relays
for poi in PoIs:
if poi['pop'] not in vertices:
log.warn("Matched relay to {0}, but couldn't find it "
"in vertices".format(poi['pop']))
stats.incr('unattachable-poi-count')
stats.incr('unattachable-poi', poi['id'])
continue
vertices.add_vertex(poi['id'],
nodeid=poi['id'],
nodetype='relay',
**poi)
linkdelays = [
delay
for edge in r.smembers(dbkeys.Link.intralink(poi['pop']))
for delay in r.smembers(dbkeys.delay_key(*eval(edge)))]
try:
deciles = util.decile_transform(linkdelays)
except util.EmptyListError:
deciles = [5 for x in xrange(10)]
stats.incr('poi-latency-defaulted')
graphlinks.append(EdgeLink(poi['id'], poi['pop'],
{'latency': deciles,
'med_latency': deciles[len(deciles)/2]}))
stats.incr('num-pois')
tor_vertices.add(poi['id'])
i += 1
log.info("Added {0} PoIs. Did not attach {1} "
"whose connection point was not linked to anything."
.format(stats['num-pois'],
stats['unattachable-poi-count'])
)
log.info("PoIs defaulted to 5ms links: [{0}]".format(
stats['poi-latency-defaulted']))
pipe.execute()
already_processed = set()
log.info("Processing links... ")
i = 0
for pop1 in linkdict.iterkeys():
if pop1 not in vertices:
continue
for pop2 in linkdict[pop1]:
if (pop2 not in vertices
or dbkeys.Link.interlink(pop1, pop2) in already_processed):
continue
linkkey = dbkeys.Link.interlink(pop1, pop2)
linkdelays = [
delay
for edge in r.smembers(linkkey)
for delay in r.smembers(dbkeys.delay_key(*eval(edge)))]
try:
latency = util.decile_transform(linkdelays)
except util.EmptyListError:
latency = eval(r.get("graph:collapsed:%s" %
(dbkeys.Link.interlink(pop1, pop2))))
graphlinks.append(EdgeLink(pop1, pop2,
{'latency': latency, 'med_latency': latency[len(latency)/2]}))
stats.incr('num-links')
already_processed.add(dbkeys.Link.interlink(pop1, pop2))
i += 1
sys.stderr.write("{0}Processed links for {1} pops"
.format(Color.NEWL, i))
log.info("Processed {0} pop links "
.format(stats['num-links']))
log.info("Making Graph")
with open("vertices.dat", 'w') as vertout:
vertices.write(vertout)
gr = nx.Graph()
gr.add_nodes_from(vertices.nx_tuple_iter())
gr.add_edges_from([edge.nx_tuple() for edge in graphlinks])
try:
bfs_edges = nx.bfs_edges(gr, linkdict.max_degree())
except:
print "Something was wrong with: %s" % linkdict.max_degree()
raise
bfs_node_gen = (node for pair in bfs_edges for node in pair)
subgraph = gr.subgraph(bfs_node_gen)
assert nx.is_connected(subgraph)
log.info("BFS reduced graph from {0} to {1} vertices".format(
len(gr), len(subgraph)))
log.info("Writing data file")
nx.write_graphml(subgraph, args.reload)
log.info("Wrote files")
log.info("STATS:")
for key, val in stats.iteritems():
log.info("{0}: {1}".format(key, val))
return gr
def process_delayed_joins(args):
log.info("Processing delayed joins")
r = connection.Redis()
if r.llen("delayed_job:unassigned_link_fails") > 0:
sys.stderr.write("Have unassigned links. "
"Run assign_pops --process_failed\n")
raise SilentExit()
# Now we process any joins that need to happen. First we lock.
error_ctr = 0
dbkeys.mutex_popjoin().acquire()
try:
joinlist = preprocess_joins()
inprocess = list()
x = len(joinlist)
log.info("Joining pop pairs: %d".format(x))
fh = None
if args.log_joins:
fh = logging.FileHandler(args.log_joins, mode='w')
fh.setLevel(logging.DEBUG)
fh.setFormatter(logging.Formatter('%(message)s'))
log.addHandler(fh)
timer = ProgressTimer(x)
for i, to_join in enumerate(joinlist):
inprocess.append(to_join)
log.info("Joining %s to %s\n" % (to_join[1], to_join[0]))
try:
joined = join_pops(r, to_join[0], to_join[1])
except redis_errors as e:
log.error("Encountered error while processing: {0}. [{1}]\n"
.format(to_join, e))
joinlist.insert(0, inprocess.pop())
error_ctr += 1
continue
else:
if joined is not None:
log.info("Joined %s to %s\n" % (joined[1], joined[0]))
if (r.sismember(dbkeys.POP.list(), to_join[1])
or r.exists(dbkeys.POP.members(to_join[1]))):
if descend_target_chain(r, to_join[0]) != to_join[1]:
raise Exception("Join Failed in ways it should not have...")
else:
log.info("Did not join {0} to {1} because {2} had "
"previously been joined to {3}\n"
.format(to_join[1], to_join[0], to_join[0], to_join[1]))
timer.tick(1)
x = len(joinlist) - i
sys.stderr.write("{newl} {0} joins left {1}\n".format(
x,
Color.wrapformat("[{0} seconds to finish]",
Color.OKBLUE, timer.eta()),
newl=Color.NEWL))
r.delete('delayed_job:popjoins')
r.delete('delayed_job:popjoins:inprocess')
r.delete(r.keys(dbkeys.POP.joined("*")))
log.info("Joined pops with %d errors while processing" % error_ctr)
if fh is not None:
log.removeHandler(fh)
except KeyboardInterrupt:
pass
finally:
dbkeys.mutex_popjoin().release()
def preprocess_joins():
log.debug("Determining how many joins to preprocess")
r = connection.Redis()
numjoins = r.llen('delayed_job:popjoins')
joins = map(eval, r.lrange('delayed_job:popjoins', 0, -1))
jm = dict()
reduced_joins = list()
seen_joins = set()
log.info("Preprocessing %s joins" % numjoins)
def get_join_target(jm, node):
target = node
seen = set()
try:
while True:
seen.add(target)
target = jm[target]
except KeyError:
pass
seen.remove(target)
if len(seen) > 1:
jm.update(itertools.izip_longest(seen, [target], fillvalue=target))
return target
timer = ProgressTimer(numjoins)
for i, join in enumerate(joins):
from_node = get_join_target(jm, join[1])
to_node = get_join_target(jm, join[0])
if from_node != to_node:
jm[from_node] = to_node
if i % 100 == 0:
timer.tick(100)
sys.stderr.write(Color.NEWL + "PreProcessing joins {0}"
.format(Color.wrapformat("[ETA: {0} seconds]",
Color.OKBLUE, timer.eta())))
sys.stderr.write(Color.NEWL +
"PreProcessing joins {0}\n"
.format(Color.wrapformat("[complete]", Color.OKGREEN)))
timer = ProgressTimer(numjoins)
for i, join in enumerate(joins):
newjoin = (get_join_target(jm, join[0]), join[1])
if newjoin not in seen_joins:
reduced_joins.append(newjoin)
seen_joins.add(newjoin)
if i % 100 == 0:
timer.tick(100)
sys.stderr.write(Color.NEWL + "Reducing join list {0}".format(
Color.wrapformat("[ETA: {0} seconds]",
Color.OKBLUE, timer.eta())))
sys.stderr.write(Color.NEWL +
"Reducing join list {0}\n"
.format(Color.wrapformat("[complete]", Color.OKGREEN)))
log.info("Reduced join list from %s to %s joins"
% (numjoins, len(reduced_joins)))
return reduced_joins
def collapse_degree_two(self, protected=[]):
log.info("Cleaning up collapse dbkeys...")
r = connection.Redis()
p = r.pipeline()
for key in r.keys("graph:collapsed:*"):
p.delete(key)
write_failed(p.execute())
pass_ctr = 0
collapsable = True
ignoreable = set()
clogout = open('collapse.log', 'w')
while collapsable:
pass_ctr += 1
sys.stderr.write("\n")
collapsable = False
degree2nodes = filter(
lambda val: (len(val[1]) == 2 and val[0] not in ignoreable),
self.iteritems())
counter = 0
n = 0
deferred = 0
collapsed = set()
timer = ProgressTimer(len(degree2nodes))
for node, connections in degree2nodes:
if n % 50 == 0 or n == timer.total - 1:
timer.tick(50)
sys.stderr.write(
"{0}Pass {1}: {2} {3}".format(
Color.NEWL, pass_ctr,
Color.wrapformat(
"[{0} processed, {1} collapsed, {2} deferred]",
Color.HEADER, n, counter, deferred
),
Color.wrapformat(
"[eta: {0}]",
Color.OKGREEN, timer.eta()
))
)
n += 1
asns = [r.get(dbkeys.POP.asn(x)) for x in connections | set([node])]
countries = [r.smembers(dbkeys.POP.countries(x))
for x in connections | set([node])]
same_asn = reduce(lambda x, y: x if x == y else False, asns)
same_country = True
for x, y in pairwise(countries):
if x & y != x:
same_country = False
if (same_asn is False or same_country is False or node in protected):
ignoreable.update(connections | set([node]))
continue
if len(collapsed & (connections | set([node]))) != 0:
deferred += 1
continue
collapsed.update(connections | set([node]))
side1 = connections.pop()
side2 = connections.pop()
connections.update(set([side1, side2]))
try:
#side1_delay = median(get_delays(dbkeys.Link.interlink(node, side1)))
side1_delays = decile_transform(
[float(delay)
for edge in r.smembers(dbkeys.Link.interlink(node, side1))
for delay in r.smembers(dbkeys.delay_key(*eval(edge)))])
except:
side1_delays = eval(r.get("graph:collapsed:%s" %
(dbkeys.Link.interlink(node, side1))))
try:
#side2_delay = median(get_delays(dbkeys.Link.interlink(node, side2)))
side2_delays = decile_transform(
[float(delay)
for edge in r.smembers(dbkeys.Link.interlink(node, side2))
for delay in r.smembers(dbkeys.delay_key(*eval(edge)))])
except:
side2_delays = eval(r.get("graph:collapsed:%s" %
(dbkeys.Link.interlink(node, side2))))
combined_delays = [s1 + s2
for s1 in side1_delays
for s2 in side2_delays]
r.set('graph:collapsed:%s'
% (dbkeys.Link.interlink(*list(connections))),
decile_transform(combined_delays))
clogout.write("Collapsed %s <-> %s <-> %s\n" %
(side1, node, side2))
collapsable = True
del self[node]
self[side1].add(side2)
self[side2].add(side1)
self[side1].remove(node)
self[side2].remove(node)
counter += 1
clogout.close()
