def index_starters(rule_tokens, gaps, _ngram_length=NGRAM_LENGTH):
"""
Given an sequence of rule tokens and a set of gaps for that rule, return a
sequence of tuples of (starter ngram, start,) computed from the tokens,
gaps and ngram len. start is the starting position of the ngram.
"""
rule_tokens = list(rule_tokens)
len_tokens = len(rule_tokens)
if not gaps:
# no gaps: consider only the first ngram and the whole rule.
if len_tokens >= _ngram_length:
yield tuple(rule_tokens[:_ngram_length]), 0
else:
# T' starts at -1
# pos:
# 0 1 2 T 3 4 5 6 7 T 8 9 L
# gaps + len:
# 2 7 10
# slices:
# [0:3] [3:8] [8:11]
# spans:
# [0:2] [3:7] [8:10]
# recipe:
# [T'+1:T+1] [T'+1:T+1] [T'+1:T+1]
for start, ngram in enumerate(ngrams(rule_tokens, ngram_length=_ngram_length)):
if start == 0:
if not any(g in gaps for g in range(0, _ngram_length - 2)):
yield ngram, start
elif start - 1 in gaps and not any(p in range(start, start + _ngram_length - 1) for p in gaps):
yield ngram, start
def write_ngrams(texts, output, _seen=set(), ngram_length=6):
"""
Write the texts list as ngrams to the output file-like object.
"""
for text in ['\n'.join(ngs) for ngs in ngrams(texts, ngram_length=ngram_length)]:
if text in _seen:
continue
_seen.add(text)
output.write(template.format(text))
def test_ngrams_with_None_length_three(self):
tokens = [
'Redistribution', 'and', 'use', None, 'in', 'source', 'and',
'binary', 'are', None
]
result = list(ngrams(tokens, ngram_length=3))
expected = [('Redistribution', 'and', 'use'), ('and', 'use', None),
('use', None, 'in'), (None, 'in', 'source'),
('in', 'source', 'and'), ('source', 'and', 'binary'),
('and', 'binary', 'are'), ('binary', 'are', None)]
assert result == expected
def add_ngrams(
automaton,
tids,
tokens,
rule_length,
len_legalese,
unknown_ngram_length=UNKNOWN_NGRAM_LENGTH,
):
"""
Add the `tids` sequence of token ids to an unknown ngram automaton.
"""
if rule_length >= unknown_ngram_length:
tids_ngrams = tokenize.ngrams(tids, ngram_length=unknown_ngram_length)
toks_ngrams = tokenize.ngrams(tokens,
ngram_length=unknown_ngram_length)
for tids_ngram, toks_ngram in zip(tids_ngrams, toks_ngrams):
if is_good_tokens_ngram(toks_ngram, tids_ngram, len_legalese):
# note that we do not store positions as values, only the ngram
# since we do not keep the rule origin of an ngram
automaton.add_word(tids_ngram)
def test_ngrams_with_None(self):
tokens = ['Redistribution', 'and', 'use', None, 'in', 'source', 'and', 'binary', 'are', None]
result = list(ngrams(tokens, ngram_length=4))
expected = [
('Redistribution', 'and', 'use', None),
('and', 'use', None, 'in'),
('use', None, 'in', 'source'),
(None, 'in', 'source', 'and'),
('in', 'source', 'and', 'binary'),
('source', 'and', 'binary', 'are'),
('and', 'binary', 'are', None)]
assert expected == result
def test_ngrams(self):
tokens = '''
Redistribution and use in source and binary are permitted.
'''.split()
result = list(ngrams(tokens, ngram_length=4))
expected = [('Redistribution', 'and', 'use', 'in'),
('and', 'use', 'in', 'source'),
('use', 'in', 'source', 'and'),
('in', 'source', 'and', 'binary'),
('source', 'and', 'binary', 'are'),
('and', 'binary', 'are', 'permitted.')]
assert result == expected
def test_ngrams2(self):
tokens = '''
Redistribution and use in source and binary are permitted.
'''.split()
result = list(ngrams(tokens, ngram_length=4))
expected = [
('Redistribution', 'and', 'use', 'in'),
('and', 'use', 'in', 'source'),
('use', 'in', 'source', 'and'),
('in', 'source', 'and', 'binary'),
('source', 'and', 'binary', 'are'),
('and', 'binary', 'are', 'permitted.')]
assert expected == result
def get_weighted_hash(self):
"""
Return a weighted array from the word token list.
"""
result = [0] * HASH_LENGTH
length = len(self.tokens) - SHINGLE_LENGTH + 1
shingles = ngrams(self.tokens, SHINGLE_LENGTH)
if length > 0:
for shingle in shingles:
shingle = ''.join(shingle)
self.process_shingles(shingle, result)
else:
self.process_shingles(''.join(self.tokens), result)
return result
def build_set_and_bigrams_mset(token_ids):
"""
Return a tuple of (tids set, multiset) given a `token_ids` tids
sequence.
"""
tids_set = intbitset()
bigrams_mset = defaultdict(int)
for bigram in ngrams(token_ids, 2):
# this skips already matched token ids that are -1
if -1 in bigram:
continue
bigrams_mset[bigram] += 1
tids_set.update(bigram)
return tids_set, bigrams_mset
def filter_strings(strs, nglen=4):
"""
Filter cluster of short strings.
If a string two previous and next neighbors and itself have a
small length less than mlen, discard that string.
"""
from licensedcode.tokenize import ngrams
# FIXME: the ngrams function skips things if we have less than ngram_len strings
strs = list(strs)
if len(strs) < nglen:
for s in strs:
yield s
else:
for ngm in ngrams(strs, nglen):
junk = (all(len(s) <= 5 for s in ngm)
or sum(len(s) for s in ngm) <= nglen * 5
or len(set(ngm[0])) / float(len(ngm[0])) < 0.01)
if junk:
continue
yield ngm[0]
def _add_rules(
self,
rules,
_legalese=common_license_words,
_spdx_tokens=frozenset(),
_license_tokens=frozenset(),
):
"""
Add a list of Rule objects to the index and constructs optimized and
immutable index structures.
`_legalese` is a set of common license-specific words aka. legalese
`_spdx_tokens` is a set of token strings used in SPDX license identifiers
``license_tokens`` is a set of "license" tokens used as start or end of a rule
"""
if self.optimized:
raise Exception('Index has been optimized and cannot be updated.')
# initial dictionary mapping for known legalese tokens
########################################################################
# FIXME: we should start enumerating at 1 below: token ids then become
# valid "unichr" values, making it easier downstream when used in
# automatons
self.dictionary = dictionary = {
ts: tid for tid, ts in enumerate(sorted(_legalese))
}
dictionary_get = dictionary.get
self.len_legalese = len_legalese = len(dictionary)
highest_tid = len_legalese - 1
# Add SPDX key tokens to the dictionary
# these are always treated as non-legalese. This may seem weird
# but they are detected in expressions alright and some of their
# tokens exist as rules too (e.g. GPL)
########################################################################
for sts in sorted(_spdx_tokens):
stid = dictionary_get(sts)
if stid is None:
# we have a never yet seen token, so we assign a new tokenid
highest_tid += 1
stid = highest_tid
dictionary[sts] = stid
self.rules_by_rid = rules_by_rid = list(rules)
# ensure that rules are sorted
rules_by_rid.sort()
len_rules = len(rules_by_rid)
# create index data structures
# OPTIMIZATION: bind frequently used methods to the local scope for
# index structures
########################################################################
tids_by_rid_append = self.tids_by_rid.append
false_positive_rids_add = self.false_positive_rids.add
regular_rids_add = self.regular_rids.add
approx_matchable_rids_add = self.approx_matchable_rids.add
# since we only use these for regular rules, these lists may be sparse.
# their index is the rule rid
self.high_postings_by_rid = high_postings_by_rid = [None] * len_rules
self.sets_by_rid = sets_by_rid = [None] * len_rules
self.msets_by_rid = msets_by_rid = [None] * len_rules
# track all duplicate rules: fail and report dupes at once at the end
dupe_rules_by_hash = defaultdict(list)
# create a set of known "license" words used to determine if a rule
# starts or ends with a "license" word/token
########################################################################
license_tokens = set()
for t in _license_tokens:
tid = dictionary_get(t)
if tid is not None:
license_tokens.add(tid)
rules_automaton_add = partial(match_aho.add_sequence,
automaton=self.rules_automaton, with_duplicates=False)
if USE_AHO_FRAGMENTS:
fragments_automaton_add = partial(
match_aho.add_sequence,
automaton=self.fragments_automaton,
with_duplicates=True,
)
if USE_RULE_STARTS:
starts_automaton_add_start = partial(
match_aho.add_start,
automaton=self.starts_automaton,
)
# OPTIMIZED: bind frequently used objects to local scope
rid_by_hash = self.rid_by_hash
match_hash_index_hash = match_hash.index_hash
match_set_tids_set_counter = match_set.tids_set_counter
match_set_multiset_counter = match_set.multiset_counter
len_starts = SMALL_RULE
min_len_starts = SMALL_RULE * 6
ngram_len = AHO_FRAGMENTS_NGRAM_LEN
# Index each rule
########################################################################
for rid, rule in enumerate(rules_by_rid):
# assign rid
rule.rid = rid
rule_token_ids = array('h', [])
tids_by_rid_append(rule_token_ids)
rule_token_ids_append = rule_token_ids.append
rule_tokens = []
rule_tokens_append = rule_tokens.append
# A rule is weak if it does not contain at least one legalese word:
# we consider all rules to be weak until proven otherwise below.
# "weak" rules can only be matched with an automaton.
is_weak = True
for rts in rule.tokens():
rule_tokens_append(rts)
rtid = dictionary_get(rts)
if rtid is None:
# we have a never yet seen token, so we assign a new tokenid
# note: we could use the length of the dictionary instead
highest_tid += 1
rtid = highest_tid
dictionary[rts] = rtid
if is_weak and rtid < len_legalese:
is_weak = False
rule_token_ids_append(rtid)
rule_length = rule.length
is_tiny = rule_length < TINY_RULE
# build hashes index and check for duplicates rule texts
rule_hash = match_hash_index_hash(rule_token_ids)
dupe_rules_by_hash[rule_hash].append(rule)
####################
# populate automaton with the whole rule tokens sequence, for all
# RULEs, be they "standard"/regular, weak, false positive or small
####################
rules_automaton_add(tids=rule_token_ids, rid=rid)
if rule.is_false_positive:
# False positive rules do not participate in the set or sequence
# matching at all: they are used for exact matching and in post-
# matching filtering
false_positive_rids_add(rid)
continue
# from now on, we have regular rules
rid_by_hash[rule_hash] = rid
regular_rids_add(rid)
# Does the rule starts or ends with a "license" word? We track this
# to help disambiguate some overlapping false positive short rules
# OPTIMIZED: the last rtid above IS the last token id
if license_tokens:
if rtid in license_tokens:
rule.ends_with_license = True
if rule_token_ids[0] in license_tokens:
rule.starts_with_license = True
# populate unknown_automaton that only makes sense for rules that
# are also sequence matchable.
####################
match_unknown.add_ngrams(
automaton=self.unknown_automaton,
tids=rule_token_ids,
tokens=rule_tokens,
len_legalese=len_legalese,
rule_length=rule_length,
)
# Some rules that cannot be matched as a sequence are "weak" rules
# or can require to be matched only as a continuous sequence of
# tokens. This includes, tiny, is_continuous or is_license_reference
# rules. We skip adding these to the data structures used for
# sequence matching.
can_match_as_sequence = not (
is_weak
or is_tiny
or rule.is_continuous
or (rule.is_small
and (rule.is_license_reference or rule.is_license_tag))
)
if can_match_as_sequence:
approx_matchable_rids_add(rid)
####################
# update high postings: positions by high tids used to
# speed up sequence matching
####################
# no postings for rules that cannot be matched as a sequence (too short and weak)
# TODO: this could be optimized with a group_by
postings = defaultdict(list)
for pos, tid in enumerate(rule_token_ids):
if tid < len_legalese:
postings[tid].append(pos)
# OPTIMIZED: for speed and memory: convert postings to arrays
postings = {tid: array('h', value) for tid, value in postings.items()}
high_postings_by_rid[rid] = postings
####################
# ... and ngram fragments: compute ngrams and populate an automaton with ngrams
####################
if (USE_AHO_FRAGMENTS
and rule.minimum_coverage < 100
and rule_length > ngram_len
):
all_ngrams = tokenize.ngrams(rule_token_ids, ngram_length=ngram_len)
all_ngrams_with_pos = tokenize.select_ngrams(all_ngrams, with_pos=True)
# all_ngrams_with_pos = enumerate(all_ngrams)
for pos, ngram in all_ngrams_with_pos:
fragments_automaton_add(tids=ngram, rid=rid, start=pos)
####################
# use the start and end of this rule as a break point for query runs
####################
if USE_RULE_STARTS and rule_length > min_len_starts:
starts_automaton_add_start(
tids=rule_token_ids[:len_starts],
rule_identifier=rule.identifier,
rule_length=rule_length,
)
####################
# build sets and multisets indexes, for all regular rules as we need
# the thresholds
####################
tids_set, mset = match_set.build_set_and_mset(
rule_token_ids, _use_bigrams=USE_BIGRAM_MULTISETS)
sets_by_rid[rid] = tids_set
msets_by_rid[rid] = mset
####################################################################
####################################################################
# FIXME!!!!!!! we should store them: we need them and we recompute
# them later at match time
tids_set_high = match_set.high_tids_set_subset(
tids_set, len_legalese)
mset_high = match_set.high_multiset_subset(
mset, len_legalese, _use_bigrams=USE_BIGRAM_MULTISETS)
# FIXME!!!!!!!
####################################################################
####################################################################
####################
# update rule thresholds
####################
rule.length_unique = match_set_tids_set_counter(tids_set)
rule.high_length_unique = match_set_tids_set_counter(tids_set_high)
rule.high_length = match_set_multiset_counter(mset_high)
rule.compute_thresholds()
########################################################################
# Finalize index data structures
########################################################################
# Create the tid -> token string lookup structure.
########################################################################
self.tokens_by_tid = tokens_by_tid = [
ts for ts, _tid in sorted(dictionary.items(), key=itemgetter(1))]
self.len_tokens = len_tokens = len(tokens_by_tid)
# some tokens are made entirely of digits and these can create some
# worst case behavior when there are long runs on these
########################################################################
self.digit_only_tids = intbitset([
i for i, s in enumerate(self.tokens_by_tid) if s.isdigit()])
# Finalize automatons
########################################################################
self.rules_automaton.make_automaton()
if USE_AHO_FRAGMENTS:
self.fragments_automaton.make_automaton()
if USE_RULE_STARTS:
match_aho.finalize_starts(self.starts_automaton)
self.unknown_automaton.make_automaton()
########################################################################
# Do some sanity checks
########################################################################
msg = 'Inconsistent structure lengths'
assert len_tokens == highest_tid + 1 == len(dictionary), msg
msg = 'Cannot support more than licensedcode.index.MAX_TOKENS: %d' % MAX_TOKENS
assert len_tokens <= MAX_TOKENS, msg
dupe_rules = [rules for rules in dupe_rules_by_hash.values() if len(rules) > 1]
if dupe_rules:
dupe_rule_paths = [
'\n'.join(
sorted([
('file://' + rule.text_file)
if rule.text_file
else ('text: ' + rule.stored_text)
for rule in rules])
)
for rules in dupe_rules
]
msg = ('Duplicate rules: \n' + '\n\n'.join(dupe_rule_paths))
raise AssertionError(msg)
self.optimized = True
def renumber_token_ids(rules_tokens_ids, dictionary, tokens_by_tid, frequencies_by_tid, length=9, with_checks=True):
"""
Return updated index structures with new token ids such that the most common
aka. 'junk' tokens have the lowest ids.
`rules_tokens_ids` is a mapping of rule_id->sequence of token ids
These common tokens are based on a curated list of frequent words and
further refined such that:
- no rule text sequence is composed entirely of these common tokens.
- no or only a few rule text sub-sequence of `length` tokens (aka.
ngrams) is not composed entirely of these common tokens.
The returned structures are:
- old_to_new: mapping of (old token id->new token id)
- len_junk: the highest id of a junk token
- dictionary (token string->token id)
- tokens_by_tid (token id->token string)
- frequencies_by_tid (token id->frequency)
"""
# keep track of very common junk tokens: digits and single letters
very_common = set()
very_common_add = very_common.add
string_lowercase = u'abcdefghijklmnopqrstuvwxyz'
for tid, token in enumerate(tokens_by_tid):
# DIGIT TOKENS: Treat tokens composed only of digits as common junk
# SINGLE ASCII LETTER TOKENS: Treat single ASCII letter tokens as common junk
# TODO: ensure common numbers as strings are always there (one, two, and first, second, etc.)
if token.isdigit() or (len(token) == 1 and token in string_lowercase):
very_common_add(tid)
# keep track of good, "not junk" tokens
good = set()
good_update = good.update
# Classify rules tokens as smaller or equal to `length` or regular.
regular_rules = []
regular_rules_append = regular_rules.append
small_rules = []
small_rules_append = small_rules.append
for rid, rule_toks_ids in enumerate(rules_tokens_ids):
len_toks = len(rule_toks_ids)
if len_toks == 1:
# RULES of ONE TOKEN: their token cannot be junk
good_update(rule_toks_ids)
if len_toks <= length:
small_rules_append((rid, rule_toks_ids))
else:
regular_rules_append((rid, rule_toks_ids))
# Build a candidate junk set of roughly ~ 1/10th the size of of tokens set:
# we use a curated list of common words as a base. The final length (and
# also biggest token id) of junk tokens set typically ~ 1200 for about 12K
# tokens
junk_max = abs((len(tokens_by_tid) / 11) - len(very_common))
junk = set()
junk_add = junk.add
dictionary_get = dictionary.get
junk_count = 0
for token in global_tokens_by_ranks():
tid = dictionary_get(token)
if tid is None:
continue
if tid not in very_common and tid not in good:
junk_add(tid)
junk_count += 1
if junk_count == junk_max:
break
# Assemble our final junk and not junk sets
final_junk = (very_common | junk) - good
good = set(range(len(tokens_by_tid))) - final_junk
if with_checks:
# Now do a few sanity checks...
def tokens_str(_tks):
return u' '.join(tokens_by_tid[_tk] for _tk in _tks)
# Check that no small rule is made entirely of junk
for rid, tokens in small_rules:
try:
assert not all([jt in final_junk for jt in tokens])
except AssertionError:
# this is a serious index issue
print('!!!License Index FATAL ERROR: small rule: ', rid , 'is all made of junk:', tokens_str(tokens))
raise
# Check that not too many ngrams are made entirely of junk
# we build a set of ngrams for `length` over tokens of rules at equal or
# bigger than length and check them all
all_junk_ngrams_count = 0
for rid, tokens in regular_rules:
for ngram in ngrams(tokens, length):
# skip ngrams composed only of common junk as not significant
if all(nt in very_common for nt in ngram):
continue
try:
# note: we check only against junk, not final_junk
assert not all(nt in junk for nt in ngram)
except AssertionError:
all_junk_ngrams_count += 1
# TODO: test that the junk choice is correct: for instance using some
# stats based on standard deviation or markov chains or similar
# conditional probabilities such that we verify that CANNOT create a
# distinctive meaningful license string made entirely from junk tokens
# check that we do not have too many ngrams made entirely of junk
assert all_junk_ngrams_count < (length * 20)
# Sort each set of old token IDs by decreasing original frequencies
# FIXME: should use a key function not a schwartzian sort
decorated = ((frequencies_by_tid[old_id], old_id) for old_id in final_junk)
final_junk = [t for _f, t in sorted(decorated, reverse=True)]
# FIXME: should use a key function not a schwartzian sort
decorated = ((frequencies_by_tid[old_id], old_id) for old_id in good)
good = [t for _f, t in sorted(decorated, reverse=True)]
# create the new ids -> tokens value mapping
new_tokens_by_tid = [tokens_by_tid[t] for t in final_junk + good]
# sanity check: by construction this should always be true
assert set(new_tokens_by_tid) == set(tokens_by_tid)
# create new structures based on new ids and a mapping from old to new id
len_tokens = len(new_tokens_by_tid)
old_to_new = array('h', [0] * len_tokens)
new_frequencies_by_tid = [None] * len_tokens
new_dictionary = {}
# assign new ids, re build dictionary, frequency
for new_id, token in enumerate(new_tokens_by_tid):
old_id = dictionary[token]
old_to_new[old_id] = new_id
new_dictionary[token] = new_id
old_freq = frequencies_by_tid[old_id]
new_frequencies_by_tid[new_id] = old_freq
sparsify(new_dictionary)
return old_to_new, len(final_junk), new_dictionary, new_tokens_by_tid, new_frequencies_by_tid
def _add_rules(self, rules, _ranked_tokens=global_tokens_by_ranks):
"""
Add a list of Rule objects to the index and constructs optimized and
immutable index structures.
"""
if self.optimized:
raise Exception('Index has been optimized and cannot be updated.')
# this assigns the rule ids implicitly: this is the index in the list
self.rules_by_rid = list(rules)
#######################################################################
# classify rules, collect tokens and frequencies
#######################################################################
# accumulate all rule tokens strings. This is used only during indexing
token_strings_by_rid = []
# collect the unique token strings and compute their global frequency
# This is used only during indexing
frequencies_by_token = Counter()
for rid, rul in enumerate(self.rules_by_rid):
rul_tokens = list(rul.tokens())
token_strings_by_rid.append(rul_tokens)
frequencies_by_token.update(rul_tokens)
# assign the rid to the rule object for sanity
rul.rid = rid
# classify rules and build disjuncted sets of rids
rul_len = rul.length
if rul.false_positive:
# false positive rules do not participate in the matches at all
# they are used only in post-matching filtering
self.false_positive_rids.add(rid)
if rul_len > self.largest_false_positive_length:
self.largest_false_positive_length = rul_len
elif rul.negative():
# negative rules are matched early and their exactly matched
# tokens are removed from the token stream
self.negative_rids.add(rid)
elif rul.small():
# small rules are best matched with a specialized approach
self.small_rids.add(rid)
else:
# regular rules are matched using a common approach
self.regular_rids.add(rid)
# Create the tokens lookup structure at once. Note that tokens ids are
# assigned randomly here at first by unzipping: we get the frequencies
# and tokens->id at once this way
tokens_by_tid, frequencies_by_tid = izip(*frequencies_by_token.items())
self.tokens_by_tid = tokens_by_tid
self.len_tokens = len_tokens = len(tokens_by_tid)
assert len_tokens <= MAX_TOKENS, 'Cannot support more than licensedcode.index.MAX_TOKENS: %d' % MAX_TOKENS
# initial dictionary mapping to old/random token ids
self.dictionary = dictionary = {
ts: tid
for tid, ts in enumerate(tokens_by_tid)
}
sparsify(dictionary)
# replace token strings with arbitrary (and temporary) random integer ids
self.tids_by_rid = [[dictionary[tok] for tok in rule_tok]
for rule_tok in token_strings_by_rid]
#######################################################################
# renumber token ids based on frequencies and common words
#######################################################################
renumbered = self.renumber_token_ids(frequencies_by_tid,
_ranked_tokens)
self.len_junk, self.dictionary, self.tokens_by_tid, self.tids_by_rid = renumbered
len_junk, dictionary, tokens_by_tid, tids_by_rid = renumbered
self.len_good = len_good = len_tokens - len_junk
#######################################################################
# build index structures
#######################################################################
len_rules = len(self.rules_by_rid)
# since we only use these for regular rules, these lists may be sparse
# their index is the rule rid
self.high_postings_by_rid = [None for _ in range(len_rules)]
self.tids_sets_by_rid = [None for _ in range(len_rules)]
self.tids_msets_by_rid = [None for _ in range(len_rules)]
# track all duplicate rules: fail and report dupes at once at the end
dupe_rules_by_hash = defaultdict(list)
# build closures for methods that populate automatons
negative_automaton_add = partial(match_aho.add_sequence,
automaton=self.negative_automaton)
rules_automaton_add = partial(match_aho.add_sequence,
automaton=self.rules_automaton)
# build by-rule index structures over the token ids seq of each rule
for rid, rule_token_ids in enumerate(tids_by_rid):
rule = self.rules_by_rid[rid]
# build hashes index and check for duplicates rule texts
rule_hash = index_hash(rule_token_ids)
dupe_rules_by_hash[rule_hash].append(rule)
if rule.false_positive:
# FP rules are not used for any matching
# there is nothing else for these rules
self.false_positive_rid_by_hash[rule_hash] = rid
else:
# negative, small and regular
# update hashes index
self.rid_by_hash[rule_hash] = rid
# update high postings index: positions by high tids
# TODO: this could be optimized with a group_by
postings = defaultdict(list)
for pos, tid in enumerate(rule_token_ids):
if tid >= len_junk:
postings[tid].append(pos)
# OPTIMIZED: for speed and memory: convert postings to arrays
postings = {
tid: array('h', value)
for tid, value in postings.items()
}
# OPTIMIZED: for speed, sparsify dict
sparsify(postings)
self.high_postings_by_rid[rid] = postings
# build high and low tids sets and multisets
rlow_set, rhigh_set, rlow_mset, rhigh_mset = index_token_sets(
rule_token_ids, len_junk, len_good)
self.tids_sets_by_rid[rid] = rlow_set, rhigh_set
self.tids_msets_by_rid[rid] = rlow_mset, rhigh_mset
# populate automatons...
if rule.negative():
# ... with only the whole rule tokens sequence
negative_automaton_add(tids=rule_token_ids, rid=rid)
else:
# ... or with the whole rule tokens sequence
rules_automaton_add(tids=rule_token_ids, rid=rid)
# ... and ngrams: compute ngrams and populate the automaton with ngrams
if USE_AHO_FRAGMENTS and rule.minimum_coverage < 100 and len(
rule_token_ids) > NGRAM_LEN:
all_ngrams = ngrams(rule_token_ids,
ngram_length=NGRAM_LEN)
selected_ngrams = select_ngrams(all_ngrams,
with_pos=True)
for pos, ngram in selected_ngrams:
rules_automaton_add(tids=ngram, rid=rid, start=pos)
# update rule thresholds
rule.low_unique = tids_set_counter(rlow_set)
rule.high_unique = tids_set_counter(rhigh_set)
rule.length_unique = rule.high_unique + rule.low_unique
rule.low_length = tids_multiset_counter(rlow_mset)
rule.high_length = tids_multiset_counter(rhigh_mset)
assert rule.length == rule.low_length + rule.high_length
# # finalize automatons
self.negative_automaton.make_automaton()
self.rules_automaton.make_automaton()
# sparser dicts for faster lookup
sparsify(self.rid_by_hash)
sparsify(self.false_positive_rid_by_hash)
dupe_rules = [
rules for rules in dupe_rules_by_hash.values() if len(rules) > 1
]
if dupe_rules:
dupe_rule_paths = [['file://' + rule.text_file for rule in rules]
for rules in dupe_rules]
msg = (u'Duplicate rules: \n' +
u'\n'.join(map(repr, dupe_rule_paths)))
raise AssertionError(msg)
self.optimized = True
def _add_rules(self,
rules,
_ranked_tokens=global_tokens_by_ranks,
_spdx_tokens=None):
"""
Add a list of Rule objects to the index and constructs optimized and
immutable index structures.
`_spdx_tokens` if provided is a set of token strings from known SPDX
keys: these receive a special treatment.
"""
if self.optimized:
raise Exception('Index has been optimized and cannot be updated.')
# this assigns the rule ids implicitly: this is the index in the list
self.rules_by_rid = list(rules)
#######################################################################
# classify rules, collect tokens and frequencies
#######################################################################
# accumulate all rule tokens strings. This is used only during indexing
token_strings_by_rid = []
# collect the unique token strings and compute their global frequency
# This is used only during indexing
frequencies_by_token = Counter()
for rid, rul in enumerate(self.rules_by_rid):
rul_tokens = list(rul.tokens())
token_strings_by_rid.append(rul_tokens)
frequencies_by_token.update(rul_tokens)
# assign the rid to the rule object for sanity
rul.rid = rid
# classify rules and build disjuncted sets of rids
if rul.is_false_positive:
# false positive rules do not participate in the matches at all
# they are used only in post-matching filtering
self.false_positive_rids.add(rid)
elif rul.is_negative:
# negative rules are matched early and their exactly matched
# tokens are removed from the token stream
self.negative_rids.add(rid)
elif rul.small():
# small rules are best matched with a specialized approach
self.small_rids.add(rid)
else:
# regular rules are matched using a common approach
self.regular_rids.add(rid)
# Add SPDX key tokens to the dictionary. track which are only from SPDX leys
########################################################################
spdx_tokens = None
if _spdx_tokens:
spdx_tokens = _spdx_tokens.difference(frequencies_by_token)
frequencies_by_token.update(_spdx_tokens)
# Create the tokens lookup structure at once. Note that tokens ids are
# assigned randomly here at first by unzipping: we get the frequencies
# and tokens->id at once this way
########################################################################
tokens_by_tid, frequencies_by_tid = izip(*frequencies_by_token.items())
self.tokens_by_tid = tokens_by_tid
self.len_tokens = len_tokens = len(tokens_by_tid)
msg = 'Cannot support more than licensedcode.index.MAX_TOKENS: %d' % MAX_TOKENS
assert len_tokens <= MAX_TOKENS, msg
# initial dictionary mapping to old/arbitrary token ids
########################################################################
self.dictionary = dictionary = {
ts: tid
for tid, ts in enumerate(tokens_by_tid)
}
sparsify(dictionary)
# replace token strings with arbitrary (and temporary) integer ids
########################################################################
self.tids_by_rid = [[dictionary[tok] for tok in rule_tok]
for rule_tok in token_strings_by_rid]
# Get SPDX-only token ids
########################################################################
spdx_token_ids = None
if spdx_tokens:
spdx_token_ids = set(dictionary[tok] for tok in spdx_tokens)
#######################################################################
# renumber token ids based on frequencies and common words
#######################################################################
renumbered = self.renumber_token_ids(frequencies_by_tid,
_ranked_tokens,
_spdx_token_ids=spdx_token_ids)
(
self.len_junk,
self.dictionary,
self.tokens_by_tid,
self.tids_by_rid,
self.weak_rids,
) = renumbered
len_junk, dictionary, tokens_by_tid, tids_by_rid, weak_rids = renumbered
#######################################################################
# build index structures
#######################################################################
self.len_good = len_good = len_tokens - len_junk
len_rules = len(self.rules_by_rid)
# since we only use these for regular rules, these lists may be sparse
# their index is the rule rid
self.high_postings_by_rid = [None for _ in range(len_rules)]
self.tids_sets_by_rid = [None for _ in range(len_rules)]
self.tids_msets_by_rid = [None for _ in range(len_rules)]
# track all duplicate rules: fail and report dupes at once at the end
dupe_rules_by_hash = defaultdict(list)
# build closures for methods that populate automatons
negative_automaton_add = partial(match_aho.add_sequence,
automaton=self.negative_automaton)
rules_automaton_add = partial(match_aho.add_sequence,
automaton=self.rules_automaton)
# build by-rule index structures over the token ids seq of each rule
for rid, rule_token_ids in enumerate(tids_by_rid):
rule = self.rules_by_rid[rid]
# build hashes index and check for duplicates rule texts
rule_hash = match_hash.index_hash(rule_token_ids)
dupe_rules_by_hash[rule_hash].append(rule)
rule_is_weak = rid in weak_rids
if rule.is_negative:
negative_automaton_add(tids=rule_token_ids, rid=rid)
else:
# update hashes index
self.rid_by_hash[rule_hash] = rid
# update high postings index: positions by high tids
# TODO: this could be optimized with a group_by
# FIXME: we do not want to keep small rules and rules that
# cannot be seq matches in the index
# no postings for junk only rules
# we do not want to keep small rules and rules that
# cannot be seq matches in the index
if not rule_is_weak:
postings = defaultdict(list)
for pos, tid in enumerate(rule_token_ids):
if tid >= len_junk:
postings[tid].append(pos)
# OPTIMIZED: for speed and memory: convert postings to arrays
postings = {
tid: array('h', value)
for tid, value in postings.items()
}
# OPTIMIZED: for speed, sparsify dict
sparsify(postings)
self.high_postings_by_rid[rid] = postings
# build high and low tids sets and multisets
rlow_set, rhigh_set, rlow_mset, rhigh_mset = match_set.index_token_sets(
rule_token_ids, len_junk, len_good)
# no set indexes for junk only rules
if not rule_is_weak:
self.tids_sets_by_rid[rid] = rlow_set, rhigh_set
self.tids_msets_by_rid[rid] = rlow_mset, rhigh_mset
# populate automaton with the whole rule tokens sequence
rules_automaton_add(tids=rule_token_ids, rid=rid)
# ... and ngrams: compute ngrams and populate the automaton with ngrams
if (USE_AHO_FRAGMENTS and rule.minimum_coverage < 100
and len(rule_token_ids) > NGRAM_LEN):
all_ngrams = tokenize.ngrams(rule_token_ids,
ngram_length=NGRAM_LEN)
selected_ngrams = tokenize.select_ngrams(all_ngrams,
with_pos=True)
for pos, ngram in selected_ngrams:
rules_automaton_add(tids=ngram, rid=rid, start=pos)
# FIXME: this may not be updated for a rule that is createda at
# match time such as SPDX rules
# update rule thresholds
rule.low_unique = match_set.tids_set_counter(rlow_set)
rule.high_unique = match_set.tids_set_counter(rhigh_set)
rule.length_unique = rule.high_unique + rule.low_unique
rule.low_length = match_set.tids_multiset_counter(rlow_mset)
rule.high_length = match_set.tids_multiset_counter(rhigh_mset)
assert rule.length == rule.low_length + rule.high_length
# finalize automatons
self.negative_automaton.make_automaton()
self.rules_automaton.make_automaton()
# sparser dicts for faster lookup
sparsify(self.rid_by_hash)
dupe_rules = [
rules for rules in dupe_rules_by_hash.values() if len(rules) > 1
]
if dupe_rules:
dupe_rule_paths = [
'\n'.join(
sorted([('file://' + rule.text_file) if rule.text_file else
('text: ' + rule.stored_text) for rule in rules]))
for rules in dupe_rules
]
msg = ('Duplicate rules: \n' + '\n\n'.join(dupe_rule_paths))
raise AssertionError(msg)
self.optimized = True
def _add_rules(self, rules, _ranked_tokens=global_tokens_by_ranks):
"""
Add a list of Rule objects to the index and constructs optimized and
immutable index structures.
"""
if self.optimized:
raise Exception('Index has been optimized and cannot be updated.')
# this assigns the rule ids implicitly: this is the index in the list
self.rules_by_rid = list(rules)
#######################################################################
# classify rules, collect tokens and frequencies
#######################################################################
# accumulate all rule tokens strings. This is used only during indexing
token_strings_by_rid = []
# collect the unique token strings and compute their global frequency
# This is used only during indexing
frequencies_by_token = Counter()
for rid, rul in enumerate(self.rules_by_rid):
rul_tokens = list(rul.tokens())
token_strings_by_rid.append(rul_tokens)
frequencies_by_token.update(rul_tokens)
# assign the rid to the rule object for sanity
rul.rid = rid
# classify rules and build disjuncted sets of rids
if rul.false_positive:
# false positive rules do not participate in the matches at all
# they are used only in post-matching filtering
self.false_positive_rids.add(rid)
elif rul.negative:
# negative rules are matched early and their exactly matched
# tokens are removed from the token stream
self.negative_rids.add(rid)
elif rul.small():
# small rules are best matched with a specialized approach
self.small_rids.add(rid)
else:
# regular rules are matched using a common approach
self.regular_rids.add(rid)
# Create the tokens lookup structure at once. Note that tokens ids are
# assigned randomly here at first by unzipping: we get the frequencies
# and tokens->id at once this way
tokens_by_tid, frequencies_by_tid = izip(*frequencies_by_token.items())
self.tokens_by_tid = tokens_by_tid
self.len_tokens = len_tokens = len(tokens_by_tid)
assert len_tokens <= MAX_TOKENS, 'Cannot support more than licensedcode.index.MAX_TOKENS: %d' % MAX_TOKENS
# initial dictionary mapping to old/random token ids
self.dictionary = dictionary = {ts: tid for tid, ts in enumerate(tokens_by_tid)}
sparsify(dictionary)
# replace token strings with arbitrary (and temporary) random integer ids
self.tids_by_rid = [[dictionary[tok] for tok in rule_tok] for rule_tok in token_strings_by_rid]
#######################################################################
# renumber token ids based on frequencies and common words
#######################################################################
renumbered = self.renumber_token_ids(frequencies_by_tid, _ranked_tokens)
self.len_junk, self.dictionary, self.tokens_by_tid, self.tids_by_rid = renumbered
len_junk, dictionary, tokens_by_tid, tids_by_rid = renumbered
self.len_good = len_good = len_tokens - len_junk
#######################################################################
# build index structures
#######################################################################
len_rules = len(self.rules_by_rid)
# since we only use these for regular rules, these lists may be sparse
# their index is the rule rid
self.high_postings_by_rid = [None for _ in range(len_rules)]
self.tids_sets_by_rid = [None for _ in range(len_rules)]
self.tids_msets_by_rid = [None for _ in range(len_rules)]
# track all duplicate rules: fail and report dupes at once at the end
dupe_rules_by_hash = defaultdict(list)
# build closures for methods that populate automatons
negative_automaton_add = partial(match_aho.add_sequence, automaton=self.negative_automaton)
rules_automaton_add = partial(match_aho.add_sequence, automaton=self.rules_automaton)
# build by-rule index structures over the token ids seq of each rule
for rid, rule_token_ids in enumerate(tids_by_rid):
rule = self.rules_by_rid[rid]
# build hashes index and check for duplicates rule texts
rule_hash = match_hash.index_hash(rule_token_ids)
dupe_rules_by_hash[rule_hash].append(rule)
if rule.negative:
negative_automaton_add(tids=rule_token_ids, rid=rid)
else:
# update hashes index
self.rid_by_hash[rule_hash] = rid
# update high postings index: positions by high tids
# TODO: this could be optimized with a group_by
postings = defaultdict(list)
for pos, tid in enumerate(rule_token_ids):
if tid >= len_junk:
postings[tid].append(pos)
# OPTIMIZED: for speed and memory: convert postings to arrays
postings = {tid: array('h', value) for tid, value in postings.items()}
# OPTIMIZED: for speed, sparsify dict
sparsify(postings)
self.high_postings_by_rid[rid] = postings
# build high and low tids sets and multisets
rlow_set, rhigh_set, rlow_mset, rhigh_mset = match_set.index_token_sets(rule_token_ids, len_junk, len_good)
self.tids_sets_by_rid[rid] = rlow_set, rhigh_set
self.tids_msets_by_rid[rid] = rlow_mset, rhigh_mset
# populate automaton with the whole rule tokens sequence
rules_automaton_add(tids=rule_token_ids, rid=rid)
# ... and ngrams: compute ngrams and populate the automaton with ngrams
if USE_AHO_FRAGMENTS and rule.minimum_coverage < 100 and len(rule_token_ids) > NGRAM_LEN:
all_ngrams = tokenize.ngrams(rule_token_ids, ngram_length=NGRAM_LEN)
selected_ngrams = tokenize.select_ngrams(all_ngrams, with_pos=True)
for pos, ngram in selected_ngrams:
rules_automaton_add(tids=ngram, rid=rid, start=pos)
# update rule thresholds
rule.low_unique = match_set.tids_set_counter(rlow_set)
rule.high_unique = match_set.tids_set_counter(rhigh_set)
rule.length_unique = rule.high_unique + rule.low_unique
rule.low_length = match_set.tids_multiset_counter(rlow_mset)
rule.high_length = match_set.tids_multiset_counter(rhigh_mset)
assert rule.length == rule.low_length + rule.high_length
# # finalize automatons
self.negative_automaton.make_automaton()
self.rules_automaton.make_automaton()
# sparser dicts for faster lookup
sparsify(self.rid_by_hash)
dupe_rules = [rules for rules in dupe_rules_by_hash.values() if len(rules) > 1]
if dupe_rules:
dupe_rule_paths = [['file://' + rule.text_file for rule in rules] for rules in dupe_rules]
msg = (u'Duplicate rules: \n' + u'\n'.join(map(repr, dupe_rule_paths)))
raise AssertionError(msg)
self.optimized = True
