From: Brian Warner Date: Tue, 31 Mar 2009 20:21:27 +0000 (-0700) Subject: hashtree: fix O(N**2) behavior, to improve fatal alacrity problems in a 10GB file... X-Git-Tag: allmydata-tahoe-1.4.0~30 X-Git-Url: https://git.rkrishnan.org/module-simplejson.encoder.html?a=commitdiff_plain;h=466014f66fbccff7668a270eafa1d372c5e11457;p=tahoe-lafs%2Ftahoe-lafs.git hashtree: fix O(N**2) behavior, to improve fatal alacrity problems in a 10GB file (#670). Also improve docstring. --- diff --git a/src/allmydata/hashtree.py b/src/allmydata/hashtree.py index 20d2afc7..20b97d35 100644 --- a/src/allmydata/hashtree.py +++ b/src/allmydata/hashtree.py @@ -162,6 +162,15 @@ class CompleteBinaryTreeMixin: def get_leaf(self, leafnum): return self[self.first_leaf_num + leafnum] + def depth_of(self, i): + """Return the depth or level of the given node. Level 0 contains node + Level 1 contains nodes 1 and 2. Level 2 contains nodes 3,4,5,6.""" + depth = 0 + while i != 0: + depth += 1 + i = self.parent(i) + return depth + def empty_leaf_hash(i): return tagged_hash('Merkle tree empty leaf', "%d" % i) def pair_hash(a, b): @@ -337,27 +346,30 @@ class IncompleteHashTree(CompleteBinaryTreeMixin, list): from 0 (the root of the tree) to 2*num_leaves-2 (the right-most leaf). leaf[i] is the same as hash[num_leaves-1+i]. - The best way to use me is to obtain the root hash from some 'good' - channel, and use the 'bad' channel to obtain data block 0 and the + The best way to use me is to start by obtaining the root hash from + some 'good' channel and populate me with it: + + iht = IncompleteHashTree(numleaves) + roothash = trusted_channel.get_roothash() + iht.set_hashes(hashes={0: roothash}) + + Then use the 'bad' channel to obtain data block 0 and the corresponding hash chain (a dict with the same hashes that needed_hashes(0) tells you, e.g. {0:h0, 2:h2, 4:h4, 8:h8} when len(L)=8). Hash the data block to create leaf0, then feed everything into set_hashes() and see if it raises an exception or not:: - iht = IncompleteHashTree(numleaves) - roothash = trusted_channel.get_roothash() - otherhashes = untrusted_channel.get_hashes() - # otherhashes.keys() should == iht.needed_hashes(leaves=[0]) - datablock0 = untrusted_channel.get_data(0) - leaf0 = HASH(datablock0) - # HASH() is probably hashutil.tagged_hash(tag, datablock0) - hashes = otherhashes.copy() - hashes[0] = roothash # from 'good' channel - iht.set_hashes(hashes, leaves={0: leaf0}) + otherhashes = untrusted_channel.get_hashes() + # otherhashes.keys() should == iht.needed_hashes(leaves=[0]) + datablock0 = untrusted_channel.get_data(0) + leaf0 = HASH(datablock0) + # HASH() is probably hashutil.tagged_hash(tag, datablock0) + iht.set_hashes(otherhashes, leaves={0: leaf0}) If the set_hashes() call doesn't raise an exception, the data block was valid. If it raises BadHashError, then either the data block was - corrupted or one of the received hashes was corrupted. + corrupted or one of the received hashes was corrupted. If it raises + NotEnoughHashesError, then the otherhashes dictionary was incomplete. """ assert isinstance(hashes, dict) @@ -376,73 +388,87 @@ class IncompleteHashTree(CompleteBinaryTreeMixin, list): % (leafnum, hashnum)) new_hashes[hashnum] = leafhash - added = set() # we'll remove these if the check fails + remove_upon_failure = set() # we'll remove these if the check fails + + # visualize this method in the following way: + # A: start with the empty or partially-populated tree as shown in + # the HashTree docstring + # B: add all of our input hashes to the tree, filling in some of the + # holes. Don't overwrite anything, but new values must equal the + # existing ones. Mark everything that was added with a red dot + # (meaning "not yet validated") + # C: start with the lowest/deepest level. Pick any red-dotted node, + # hash it with its sibling to compute the parent hash. Add the + # parent to the tree just like in step B (if the parent already + # exists, the values must be equal; if not, add our computed + # value with a red dot). If we have no sibling, throw + # NotEnoughHashesError, since we won't be able to validate this + # node. Remove the red dot. If there was a red dot on our + # sibling, remove it too. + # D: finish all red-dotted nodes in one level before moving up to + # the next. + # E: if we hit NotEnoughHashesError or BadHashError before getting + # to the root, discard every hash we've added. try: + num_levels = self.depth_of(len(self)-1) + # hashes_to_check[level] is set(index). This holds the "red dots" + # described above + hashes_to_check = [set() for level in range(num_levels+1)] + # first we provisionally add all hashes to the tree, comparing # any duplicates - for i in new_hashes: + for i,h in new_hashes.iteritems(): + level = self.depth_of(i) + hashes_to_check[level].add(i) + if self[i]: - if self[i] != new_hashes[i]: - msg = "new hash %s does not match existing hash %s at " % (base32.b2a(new_hashes[i]), base32.b2a(self[i])) - msg += self._name_hash(i) - raise BadHashError(msg) - else: - self[i] = new_hashes[i] - added.add(i) - - # then we start from the bottom and compute new parent hashes - # upwards, comparing any that already exist. When this phase - # ends, all nodes that have a sibling will also have a parent. - - hashes_to_check = list(new_hashes.keys()) - # leaf-most first means reverse sorted order - while hashes_to_check: - hashes_to_check.sort() - i = hashes_to_check.pop(-1) - if i == 0: - # The root has no sibling. How lonely. - continue - if self[self.sibling(i)] is None: - # without a sibling, we can't compute a parent - continue - parentnum = self.parent(i) - # make sure we know right from left - leftnum, rightnum = sorted([i, self.sibling(i)]) - new_parent_hash = pair_hash(self[leftnum], self[rightnum]) - if self[parentnum]: - if self[parentnum] != new_parent_hash: - raise BadHashError("h([%d]+[%d]) != h[%d]" % - (leftnum, rightnum, parentnum)) + if self[i] != h: + raise BadHashError("new hash %s does not match " + "existing hash %s at %s" + % (base32.b2a(h), + base32.b2a(self[i]), + self._name_hash(i))) else: - self[parentnum] = new_parent_hash - added.add(parentnum) - hashes_to_check.insert(0, parentnum) - - # then we walk downwards from the top (root), and anything that - # is reachable is validated. If any of the hashes that we've - # added are unreachable, then they are unvalidated. - - reachable = set() - if self[0]: - reachable.add(0) - # TODO: this could be done more efficiently, by starting from - # each element of new_hashes and walking upwards instead, - # remembering a set of validated nodes so that the searches for - # later new_hashes goes faster. This approach is O(n), whereas - # O(ln(n)) should be feasible. - for i in range(1, len(self)): - if self[i] and self.parent(i) in reachable: - reachable.add(i) - - # were we unable to validate any of the new hashes? - unvalidated = set(new_hashes.keys()) - reachable - if unvalidated: - those = ",".join([str(i) for i in sorted(unvalidated)]) - raise NotEnoughHashesError("unable to validate hashes %s" - % those) + self[i] = h + remove_upon_failure.add(i) + + for level in reversed(range(len(hashes_to_check))): + this_level = hashes_to_check[level] + while this_level: + i = this_level.pop() + if i == 0: + # The root has no sibling. How lonely. TODO: consider + # setting the root in our constructor, then throw + # NotEnoughHashesError here, because if we've + # generated the root from below, we don't have + # anything to validate it against. + continue + siblingnum = self.sibling(i) + if self[siblingnum] is None: + # without a sibling, we can't compute a parent, and + # we can't verify this node + raise NotEnoughHashesError("unable to validate [%d]"%i) + parentnum = self.parent(i) + # make sure we know right from left + leftnum, rightnum = sorted([i, siblingnum]) + new_parent_hash = pair_hash(self[leftnum], self[rightnum]) + if self[parentnum]: + if self[parentnum] != new_parent_hash: + raise BadHashError("h([%d]+[%d]) != h[%d]" % + (leftnum, rightnum, parentnum)) + else: + self[parentnum] = new_parent_hash + remove_upon_failure.add(parentnum) + parent_level = self.depth_of(parentnum) + assert parent_level == level-1 + hashes_to_check[parent_level].add(parentnum) + + # our sibling is now as valid as this node + this_level.discard(siblingnum) + # we're done! except (BadHashError, NotEnoughHashesError): - for i in added: + for i in remove_upon_failure: self[i] = None raise diff --git a/src/allmydata/test/test_hashtree.py b/src/allmydata/test/test_hashtree.py index 5388c6e9..75b4c933 100644 --- a/src/allmydata/test/test_hashtree.py +++ b/src/allmydata/test/test_hashtree.py @@ -80,6 +80,46 @@ class Incomplete(unittest.TestCase): self.failUnlessEqual(ht.needed_hashes(5, False), set([11, 6, 1])) self.failUnlessEqual(ht.needed_hashes(5, True), set([12, 11, 6, 1])) + def test_depth_of(self): + ht = hashtree.IncompleteHashTree(8) + self.failUnlessEqual(ht.depth_of(0), 0) + for i in [1,2]: + self.failUnlessEqual(ht.depth_of(i), 1, "i=%d"%i) + for i in [3,4,5,6]: + self.failUnlessEqual(ht.depth_of(i), 2, "i=%d"%i) + for i in [7,8,9,10,11,12,13,14]: + self.failUnlessEqual(ht.depth_of(i), 3, "i=%d"%i) + self.failUnlessRaises(IndexError, ht.depth_of, 15) + + def test_large(self): + # IncompleteHashTree.set_hashes() used to take O(N**2). This test is + # meant to show that it now takes O(N) or maybe O(N*ln(N)). I wish + # there were a good way to assert this (like counting VM operations + # or something): the problem was inside list.sort(), so there's no + # good way to instrument set_hashes() to count what we care about. On + # my laptop, 10k leaves takes 1.1s in this fixed version, and 11.6s + # in the old broken version. An 80k-leaf test (corresponding to a + # 10GB file with a 128KiB segsize) 10s in the fixed version, and + # several hours in the broken version, but 10s on my laptop (plus the + # 20s of setup code) probably means 200s on our dapper buildslave, + # which is painfully long for a unit test. + self.do_test_speed(10000) + + def do_test_speed(self, SIZE): + # on my laptop, SIZE=80k (corresponding to a 10GB file with a 128KiB + # segsize) takes: + # 7s to build the (complete) HashTree + # 13s to set up the dictionary + # 10s to run set_hashes() + ht = make_tree(SIZE) + iht = hashtree.IncompleteHashTree(SIZE) + + needed = set() + for i in range(SIZE): + needed.update(ht.needed_hashes(i, True)) + all = dict([ (i, ht[i]) for i in needed]) + iht.set_hashes(hashes=all) + def test_check(self): # first create a complete hash tree ht = make_tree(6)