def create_similarity_matrix(name): lda = gensim.models.ldamodel.LdaModel.load(name + '.lda') corpus = gensim.corpora.MmCorpus(name + '.mm') lda_corpus = lda[corpus] dictionary = gensim.corpora.Dictionary.load(name + '.dict') numTokens = len(dictionary.values()) index = MatrixSimilarity(lda_corpus, num_features=numTokens) index.save(name + '.sim') return
def __init__(self,
links,
stopwords=True,
num_topics=40,
num_clusters=40,
**kwargs):
from gensim.models import TfidfModel
from gensim.similarities.docsim import MatrixSimilarity
if 'n_below' not in kwargs:
kwargs['n_below'] = 5
if 'n_above' not in kwargs:
kwargs['n_above'] = 0.7
if 'iterations' not in kwargs:
kwargs['iterations'] = 200
self.meta = _compute_meta_dataframe(links)
self.lexicon, self.bow = _compute_lex_bow(self.meta,
stopwords=stopwords,
no_below=kwargs['n_below'],
no_above=kwargs['n_above'])
self.tfidf = TfidfModel(self.bow)
self.matsim = MatrixSimilarity(self.bow,
num_features=len(self.lexicon))
self.lda = _compute_lda(self.bow,
self.lexicon,
num_topics=num_topics,
iterations=kwargs['iterations'])
self.clust = _compute_spectral_clust(self.similarity_matrix(),
num_clusters=num_clusters)
def compute_documents_similarity(target, name): dictionary = gensim.corpora.Dictionary.load(name + '.dict') index = MatrixSimilarity.load(name + '.sim') print index sims = index[target] sort_sims = sorted(enumerate(sims), key=lambda item: -item[1]) top_documents = sort_sims[:200] return map(lambda item: item[0], top_documents)
def predict_movies(input_list,
corpus_path='data/corpus.txt',
dic_path='data/dic.dict'):
f = open(corpus_path, "rb")
corpus = pickle.load(f)
dic = Dictionary.load(dic_path)
dic.add_documents([input_list])
corpus.append(dic.doc2bow(input_list))
lsi = LsiModel(corpus, num_topics=200, id2word=dic)
vectorized_corpus = lsi[corpus]
doc_index = MatrixSimilarity(vectorized_corpus)
sims = doc_index[vectorized_corpus]
return sims[-1:][0][:-1]
def get_proposals_auto_grouped(topics_count=100, threshold=.5):
ids, words = _get_raw_docs()
dictionary = corpora.Dictionary(words)
corpus = [dictionary.doc2bow(x) for x in words]
tfidf = models.TfidfModel(corpus)
corpus_tfidf = tfidf[corpus]
lsi = models.LsiModel(corpus_tfidf,
id2word=dictionary,
num_topics=topics_count)
lsi_corpus = lsi[corpus_tfidf]
ms = MatrixSimilarity(lsi_corpus)
neighbors = {}
for frm, row in zip(ids, lsi_corpus):
neighbors[frm] = [
ids[n] for n, match in enumerate(ms[row])
if match > threshold and ids[n] != frm
]
results = []
groups = {}
for root, children in neighbors.items():
target = groups.get(root, None)
if not target:
target = set()
results.append(target)
target.add(root)
target.update(children)
for c in children:
groups[c] = target
rv = {}
for n, row in enumerate(results):
for x in row:
rv[x] = n
return rv
def get_proposals_auto_grouped(topics_count=20, cutoff=0.75):
doc_words, ids, titles = _get_raw_docs()
dictionary = corpora.Dictionary(doc_words)
corpus = [dictionary.doc2bow(x) for x in doc_words]
tfidf = models.TfidfModel(corpus)
corpus_tfidf = tfidf[corpus]
lsi = models.LsiModel(corpus_tfidf,
id2word=dictionary,
num_topics=topics_count)
lsi_corpus = lsi[corpus_tfidf]
ms = MatrixSimilarity(lsi_corpus)
neighborhoods = []
seen = set()
for n in range(len(lsi_corpus)):
if n in seen:
continue
near = neighbors(n, ms, lsi_corpus, cutoff)
neighborhoods.append({
'talks': [{
'id': ids[x],
'title': titles[x],
'row': x
} for x in near]
})
seen.update(near)
for group in neighborhoods:
rows = [x['row'] for x in group['talks']]
#Horrible way to get closest topic, but just looking for a hint.
closest_topic = sorted(lsi[lsi_corpus[rows[0]]],
key=lambda x: x[-1])[0][0]
topic = sorted(lsi.show_topic(closest_topic), key=lambda x: -x[-1])
group['topic'] = ', '.join('{} ({:.2f})'.format(x, score)
for x, score in topic)
return neighborhoods
texts = [[
word for word in document.lower().split() if word not in WORD_BLACKLIST
] for document in lines]
#print("{}".format(texts))
#ESERCIZIO 2
# Costruire il lessico (gensim.corpora.Dictionary), scartando le parole con frequenza 1
lessico = corpora.Dictionary(texts)
lessico.filter_n_most_frequent(1)
print(lessico)
#ESERCIZIO 3
# Rappresentare i documenti come vettori (gensim.corpora.Dictionary.doc2bow)
documents = [document.lower().split() for document in lines]
vector_documents = [lessico.doc2bow(document) for document in documents]
print(vector_documents)
#ESERCIZIO 4
# Calcolare la similarità tra (il vettore di) un documento qualsiasi e tutti gli altri (gensim.similarities.MatrixSimilarity)
S = MatrixSimilarity(vector_documents)
print("{}".format(S[lessico.doc2bow(documents[3])]))
#ESERCIZIO 5
# Costruire una funzione che, dato in input (il vettore di) un documento qualsiasi, restituisca gli n=5 documenti della
# collezione a lui più simili ordinati per punteggio di similarità in modo decrescente
def mostSimilar(S, lessico, document, n=5):
similars = S[lessico.doc2bow(document)]
return sorted(similars)[1:n]
print("{}".format(mostSimilar(S, lessico, documents[1])))
if word not in ENGLISH_STOP_WORDS
] for document in pieces]
# remove words that appear only once
frequency = Counter([token for text in texts for token in text])
texts = [[token for token in text if frequency[token] > 1]
for text in texts]
dictionary = corpora.Dictionary(texts)
logger.info('dictionary size: {}'.format(len(dictionary)))
corpus_ = [dictionary.doc2bow(text) for text in texts]
lsi = models.LsiModel(corpus_,
id2word=dictionary,
num_topics=lsi_topic_count)
lsi.show_topics(num_topics=lsi_topic_count,
num_words=100,
log=True)
matrix_similarity = MatrixSimilarity(
lsi[corpus_], num_features=similarity_feature_count)
elif mode in {modes[2], modes[3]}:
texts = [[
word for word in tokenize_by_word(document.lower())
if word not in ENGLISH_STOP_WORDS
] for document in pieces]
# remove words that appear only once
frequency = Counter([token for text in texts for token in text])
texts = [[token for token in text if frequency[token] > 1]
for text in texts]
documents = [
TaggedDocument(doc, [i]) for i, doc in enumerate(texts)
]
doc2vec_model = Doc2Vec(
documents,
epochs=doc2vec_epochs,
def main(param_file=None):
# setup
p, base_path, output_dir = tools.setup(param_file)
result_path = path.join(base_path, p['result_path'])
logger = tools.get_logger('gensim', path.join(output_dir, "run.log"))
logger.info("running %s" % ' '.join(sys.argv))
logger.info('loading models and dictionary')
dictionary = Dictionary.load(path.join(result_path,
p['model_label'],
'dic.dict'))
model_path = path.join(result_path, p['model_label'])
lsi = LsiModel.load(path.join(model_path, 'lsi.model'))
pre = pickle.load(open(path.join(model_path, 'pre.model')))
lsi.num_topics = p['num_topics']
logger.info('load wikipedia articles')
article_path = path.join(result_path, p['article_label'])
wiki = pickle.load(open(path.join(article_path, 'articles.pickle')))
times = np.zeros((1, len(wiki)))
count = 0
for query_key, query in wiki.iteritems():
logger.info("working on: %s" % query_key)
n = len(query)
human = [val['rating'] for val in query.itervalues()]
t0 = time.time()
corpus = [lsi[pre[dictionary.doc2bow(val['text'])]]
for val in query.itervalues()]
sim_res = MatrixSimilarity(corpus)[corpus]
sim_res.save(path.join(output_dir, 'sim_' + query_key))
avg = np.mean(sim_res, axis=0)
idx = np.argsort(avg)
times[count] = time.time() - t0
# compute correlation with human rating
res = np.zeros((n, 1))
for i in range(n):
human_r = [human[j] for j in idx[i:]]
res[i, 0] = np.mean(human_r)
# plot correlation
fig = plt.figure()
ax = fig.add_subplot(3, 1, 1)
ax.plot(res)
ax = fig.add_subplot(3, 1, 2)
ratings = [val['rating'] for val in query.itervalues()]
ax.scatter(avg[idx], [ratings[i] for i in idx])
# plot similarity distribution
ax = fig.add_subplot(3, 1, 3)
ax.bar(range(n), avg[idx])
# Set the x tick labels to the group_labels defined above and rotate
ax.set_xticks(range(n))
k = [key + ' ' + str(query[key]['rating']) for key in query.keys()]
ax.set_xticklabels([k[i] for i in idx])
fig.autofmt_xdate()
plt.savefig(path.join(output_dir, query_key + '.' + p['format']))
plt.close()
logger.info('average similarity calculation time: %f' % np.mean(times))
group_centroids = []
for cluster_no, group in top_topic_words_u_df.groupby('cluster_number'):
gsum = group.ix[:, 'topic_0':'topic_199'].as_matrix().sum(axis=0)
gsize = len(group)
c = gsum / gsize
centroid_index.append(cluster_no)
group_centroids.append(c)
group_centroids = np.array(group_centroids)
centroid_df = pd.DataFrame(group_centroids, index=centroid_index)
centroid_df.to_csv('persistence/lsi_topic-agglom_centroids.csv')
cluster_centroid_matrix = centroid_df.as_matrix()
logger.info('bulding similarity matrix')
word_mat_sim = MatrixSimilarity(cluster_centroid_matrix, num_features=200)
tfidf_corpus_lsi = np.load('persistence/tfidf_corpus_lsi-200_matrix_similarity.index.npy')
word_mat_sim.num_best = 1
word_mat_sim.save('persistence/lsi_word-agglom_word-similarity-matrix')
with open('persistence/tfidf-lsi_sim_word-topic-hier.csv','w') as fout:
with open('stats/tfidf-lsi_sim_problems.txt', 'w') as errout:
csvw = csv.writer(fout)
for doc_id, sim in enumerate(word_mat_sim[tfidf_corpus_lsi]):
try:
csvw.writerow((doc_id, sim[0][0], sim[0][1]))
except Exception as e:
errout.write(str(fnames[doc_id])+'\n')
logger.error(e)
continue
logger.info("deserializing tfidf_corpus_lsi")
tfidf_corpus_lsi = corpora.MmCorpus(os.path.join(settings.PERSIST_DIR, "tfidf_corpus_lsi-200"))
logger.info("loading lsi model")
lsi_model = lsimodel.LsiModel.load(os.path.join(settings.PERSIST_DIR, "lsi_model-200"))
logger.info("globbing filenames")
fnames = iglob(os.path.join(settings.PROC_DIR, "*.json"))
from gensim.similarities.docsim import MatrixSimilarity, SparseMatrixSimilarity, Similarity
logger.info("building matrix similarity")
sim_matrix = MatrixSimilarity(tfidf_corpus_lsi, num_features=tfidf_corpus_lsi.num_terms)
logger.info("persisting matrix similarity index")
sim_matrix.save(os.path.join(settings.PERSIST_DIR, "tfidf_corpus_lsi-200_matrix_similarity"))
logger.info("survey of neighbor groupings")
with open(os.path.join(settings.STATS_DIR, "num_neighbors.csv", "w")) as fout:
csv_writer = csv.writer(fout)
for i, doc in fnames:
try:
result = sim_matrix[matutils.unitvec(tfidf_corpus_lsi.docbyoffset(tfidf_corpus_lsi.sim_matrix[i]))]
n_similar = np.argwhere(result > 0.5).flatten().size
csv_writer.writerow((doc, n_similar))
except Exception as e:
logger.error(e)
series = pd.Series(similarities_to_group)
series.index.names = ['docx','docy']
return series
def get_tfidf_similarities(doc_index_series):
tfidfs_from = reviews_tfidf_docs[doc_index_series.name]
similarities_to = similarity_indices[tfidfs_from]
return _filter_similarities(doc_index_series,similarities_to)
# In[47]:
#similarity indices for each doc
similarity_indices = MatrixSimilarity(reviews_tfidf_docs)
# In[48]:
#get index:name mappings
doc_mapping = (
review_df
.groupby('business_id')
['name']
.apply(lambda x: x.unique()[0])
.to_frame()
.assign(doc_index=range(701))
)
logger.info('deserializing tfidf_corpus_lsi')
tfidf_corpus_lsi = corpora.MmCorpus(
os.path.join(settings.PERSIST_DIR, 'tfidf_corpus_lsi-200'))
logger.info('loading lsi model')
lsi_model = lsimodel.LsiModel.load(
os.path.join(settings.PERSIST_DIR, 'lsi_model-200'))
logger.info('globbing filenames')
fnames = iglob(os.path.join(settings.PROC_DIR, '*.json'))
from gensim.similarities.docsim import MatrixSimilarity, SparseMatrixSimilarity, Similarity
logger.info('building matrix similarity')
sim_matrix = MatrixSimilarity(tfidf_corpus_lsi,
num_features=tfidf_corpus_lsi.num_terms)
logger.info('persisting matrix similarity index')
sim_matrix.save(
os.path.join(settings.PERSIST_DIR,
'tfidf_corpus_lsi-200_matrix_similarity'))
logger.info('survey of neighbor groupings')
with open(os.path.join(settings.STATS_DIR, 'num_neighbors.csv', 'w')) as fout:
csv_writer = csv.writer(fout)
for i, doc in fnames:
try:
result = sim_matrix[matutils.unitvec(
tfidf_corpus_lsi.docbyoffset(tfidf_corpus_lsi.sim_matrix[i]))]
n_similar = np.argwhere(result > 0.5).flatten().size
group_centroids = []
for cluster_no, group in top_topic_words_u_df.groupby("cluster_number"):
gsum = group.ix[:, "topic_0":"topic_199"].as_matrix().sum(axis=0)
gsize = len(group)
c = gsum / gsize
centroid_index.append(cluster_no)
group_centroids.append(c)
group_centroids = np.array(group_centroids)
centroid_df = pd.DataFrame(group_centroids, index=centroid_index)
centroid_df.to_csv("persistence/lsi_topic-agglom_centroids.csv")
cluster_centroid_matrix = centroid_df.as_matrix()
logger.info("bulding similarity matrix")
word_mat_sim = MatrixSimilarity(cluster_centroid_matrix, num_features=200)
tfidf_corpus_lsi = np.load("persistence/tfidf_corpus_lsi-200_matrix_similarity.index.npy")
word_mat_sim.num_best = 1
word_mat_sim.save("persistence/lsi_word-agglom_word-similarity-matrix")
with open("persistence/tfidf-lsi_sim_word-topic-hier.csv", "w") as fout:
with open("stats/tfidf-lsi_sim_problems.txt", "w") as errout:
csvw = csv.writer(fout)
for doc_id, sim in enumerate(word_mat_sim[tfidf_corpus_lsi]):
try:
csvw.writerow((doc_id, sim[0][0], sim[0][1]))
except Exception as e:
errout.write(str(fnames[doc_id]) + "\n")
logger.error(e)
continue
logger.info('deserializing tfidf_corpus_lsi')
tfidf_corpus_lsi = corpora.MmCorpus(os.path.join(settings.PERSIST_DIR, 'tfidf_corpus_lsi-200'))
logger.info('loading lsi model')
lsi_model = lsimodel.LsiModel.load(os.path.join(settings.PERSIST_DIR, 'lsi_model-200'))
logger.info('globbing filenames')
fnames = iglob(os.path.join(settings.PROC_DIR, '*.json'))
from gensim.similarities.docsim import MatrixSimilarity, SparseMatrixSimilarity, Similarity
logger.info('building matrix similarity')
sim_matrix = MatrixSimilarity(tfidf_corpus_lsi, num_features=tfidf_corpus_lsi.num_terms)
logger.info('persisting matrix similarity index')
sim_matrix.save(os.path.join(settings.PERSIST_DIR, 'tfidf_corpus_lsi_matrix_similarity'))
logger.info('survey of neighbor groupings')
with open(os.path.join(settings.STATS_DIR, 'num_neighbors.csv', 'w')) as fout:
csv_writer = csv.writer(fout)
for i, doc in fnames:
try:
result = sim_matrix[matutils.unitvec(tfidf_corpus_lsi.docbyoffset(tfidf_corpus_lsi.sim_matrix[i]))]
n_similar = np.argwhere(result > 0.5).flatten().size
csv_writer.writerow((doc, n_similar))
except Exception as e:
logger.error(e)
