def get_mimic_sequence_data(data_pickle_path, word_dict_path, predict_dict_path, seq_max, vec_len, sgns_path, save_path, save=False):
all_events = CsvUtility.read_pickle(data_pickle_path, 'r')
word_dict = CsvUtility.read_pickle(word_dict_path, 'r')
predict_dict = CsvUtility.read_pickle(predict_dict_path, 'r')
# pprint(all_events[0])
print "word_dict:", len(word_dict), "predict_dict:", len(predict_dict), "all_events:", len(all_events)
feature_dict = WordIndexMap(list(word_dict))
pred_dict = WordIndexMap(list(predict_dict))
filter_event = __filter_events(all_events=all_events)
sgns_model = get_sgns_embedding('MIMIC', sgns_path)
feature_tensor = np.zeros((len(filter_event), seq_max, vec_len))
feature_count_tensor = np.zeros((len(filter_event), seq_max))
result_tensor = np.zeros((len(filter_event), len(predict_dict)))
find_nan = {}
for i_iter, event_line in enumerate(filter_event):
for seq_iter, sequence_item in enumerate(event_line[0]):
for event_code in sequence_item:
if event_code in sgns_model:
feature_tensor[i_iter][seq_iter] += sgns_model[event_code]
feature_count_tensor[i_iter][seq_iter] += 1
else:
if event_code in find_nan:
find_nan[event_code] += 1
else:
find_nan[event_code] = 1
for pred_item in event_line[1]:
result_tensor[i_iter][pred_dict.get_index_by_word(pred_item)] = 1
if i_iter % 1000 == 0:
print 'complete {0} of {1}'.format(i_iter, len(filter_event))
print 'words not in docs:', len(find_nan)
if save:
CsvUtility.write_dict2csv(feature_dict.get_word2index(), save_path, 'feature2index_seq_embedding'+str(vec_len)+'.csv')
CsvUtility.write_dict2csv(pred_dict.get_word2index(), save_path, 'predict2index_seq_embedding'+str(vec_len)+'.csv')
CsvUtility.write_array2csv(feature_tensor.reshape((feature_tensor.shape[0], -1)), save_path, 'feature_matrix_seq_embedding'+str(vec_len)+'.csv')
CsvUtility.write_array2csv(result_tensor.reshape((result_tensor.shape[0], -1)), save_path, 'result_matrix_seq_embedding'+str(vec_len)+'.csv')
return feature_tensor, feature_count_tensor, result_tensor
def __change_Movie_word_index__(self, gamma, word2index_pickle):
feature_word2id = CsvUtility.read_pickle(word2index_pickle, 'r')
print 'feature size: ', len(feature_word2id)
change_index_result = np.zeros((gamma.shape[0], len(feature_word2id)))
for j in range(gamma.shape[1]):
new_index = feature_word2id[self.dictionary.__getitem__(j)]
for i in range(gamma.shape[0]):
change_index_result[i][new_index] += gamma[i][j]
if j % 1000 == 0:
print j, 'line'
print 'after changing the size of result: ', change_index_result.shape
return change_index_result
def _load_and_process_metadata(sentence_dir,
movie_review_path,
num_processor=8):
# Extract the filenames.
sentence_filenames = glob.glob(os.path.join(sentence_dir, "*/*"))
print(len(sentence_filenames))
# print(sentence_filenames[-10:])
# sentence_filenames = sentence_filenames[-20:]
word2index = CsvUtility.read_pickle(
movie_review_path + '/new_word2index.pkl', 'r')
index2word = CsvUtility.read_pickle(
movie_review_path + '/new_index2word.pkl', 'r')
# Break the files into num_threads batches.
spacing = np.linspace(0, len(sentence_filenames),
num_processor + 1).astype(np.int)
ranges = []
for i in xrange(len(spacing) - 1):
ranges.append([spacing[i], spacing[i + 1]])
p = Pool(num_processor)
res = []
for i in range(num_processor):
start = ranges[i][0]
end = ranges[i][1]
res.append(
p.apply_async(get_corpus_contend_thread,
args=(str(i), sentence_filenames[start:end],
word2index)))
print(str(i) + ' processor started !')
# get_corpus_contend(sentence_filenames, word2index)
p.close()
p.join()