def load_word2vec_model(
relpath='word2vec_models/GoogleNews-vectors-negative300_trimmed.bin'):
global k_base, kb_type
kb_type = 'w2v'
save_previous_model()
cn.add_experiment_param(kb_type)
k_base = Word2VecKB(cn.distance_measure, knowledge_bases_foldpath, relpath)
def curr_pool_synthesis_from_sents(base_sents, base_training_df, col_names, total_new_sents=None,
choose_bulk_method=choose_best_by_uncertainty):
# type: (list, DataFrame, ColumnNames, int, callable) -> DataFrame
"""
generates new examples based on $base_sents using a generic algorithms
:param base_sents: list of base sents, from which we generate new ones
:param base_training_df: DataFrame containing all labeled sentences
:param col_names: contains the names of the columns in the output DataFrame
:param total_new_sents: indicates the number of sentences we want to synthesize
:param choose_bulk_method: a method for choosing sentences to be sent for generation
:return: an unlabeled DataFrame with the new sentences generated
"""
print "start curr pool search map"
total_new_sents = pool_size(total_new_sents, base_sents)
wanted_new_sents = int(total_new_sents * 4)
choose_amount = wanted_new_sents / 8 + 1
cn.add_experiment_param("choose_amount_"+str(choose_amount))
if "choose_amount" not in cn.experiment_purpose:
cn.experiment_purpose += "curr_pool choose_amount="+str(choose_amount)+", "
from ResearchNLP.knowledge_bases import kb_helper
kb_helper.k_base.load_knowledgebase() # explicitly load to help processes share memory
# print kb_helper.kb_type
didnt_advance_count = 0
sent_pool = set(base_sents)
current_pool = list(base_sents)
sent_pool_df = base_training_df.copy(deep=True)
print "total new sentences: " + str(wanted_new_sents)
while len(sent_pool) - len(base_sents) <= wanted_new_sents: # gen quarter size
all_new_tuples = synthesize_tree_depth1_bulk(current_pool, sent_pool_df, col_names)
combined_df = add_sentences_and_histories_to_df(base_training_df, col_names, all_new_tuples)
combined_df = prepare_df_columns(combined_df, col_names)
chosen_idxs = choose_bulk_method(combined_df, col_names, choose_amount, sent_pool)
if len(chosen_idxs) == 0:
didnt_advance_count += 1
for idx in chosen_idxs:
sent_pool_df.loc[len(sent_pool_df)] = combined_df.loc[idx].copy(deep=True)
# add new example to sent pools
new_sent = combined_df[col_names.text][idx]
assert new_sent not in sent_pool, "the new sentence should not appear beforehand"
current_pool.append(new_sent)
sent_pool.add(new_sent)
print_progress(len(sent_pool) - len(base_sents), total=wanted_new_sents)
didnt_advance_count = 0
sent_pool_df = prepare_df_columns(sent_pool_df, col_names)
if didnt_advance_count >= 50:
print "didn't advance, stopping synthesis"
break
# use the already filled sent_pool_df
final_chosen_idxs = choose_bulk_method(sent_pool_df, col_names, total_new_sents, set())
new_sents_df = sent_pool_df.iloc[final_chosen_idxs].reset_index(drop=True)
print "\ngenerated", len(new_sents_df), "sentences"
return new_sents_df
def get_sentence_representation(sent):
import ResearchNLP.Constants as cn
cn.add_experiment_param('glove300')
reduced_sent = all_in_vocab(sent).split()
if len(reduced_sent) == 0:
# print "reduced sent: " + str(sent)
return [0.0] * len(glove_model.obj.word_vectors[0]) # zeros representation
global total_diff, diff_count
total_diff += len(sent.split()) - len(reduced_sent)
diff_count += 1
return sum(map(lambda word: glove_model.obj.word_vectors[glove_model.obj.dictionary[word]].__array__(), reduced_sent)) \
/ len(reduced_sent)
def _choose_best_by_heuristic_fun(sent_df, col_names, count, ss_type, sent_pool):
# type: (DataFrame, ColumnNames, int, SynState) -> list
cn.add_experiment_param(ss_type.__name__)
unlabeled_idxs = pd.np.where(sent_df[col_names.tag].isnull())[0]
idx_text_col = list(sent_df[col_names.text][unlabeled_idxs].iteritems())
filtered_tpls = filter(lambda (idx, s): s not in sent_pool, idx_text_col)
filtered_idxs = map(lambda (idx, s): idx, filtered_tpls)
assert len(filtered_idxs) >= count, "Not enough unlabeled instances to choose from (after filtering)"
score_idx_list = calculate_heuristic_bulk(sent_df, col_names, ss_type, filtered_idxs)
return _choose_by_heuristic_score_diverse_origins(sent_df, col_names, count, score_idx_list)
def kfold_gain(train_set, dev_set, state_df, col_names):
def depth1_gain(labeled_state_df):
ex_added_list, res_list = scores_per_add_default(
labeled_state_df, train_set, dev_set)
f1_list = ExprScores.list_to_f1(res_list)
return f1_list[1] - f1_list[
0] # difference in f1 score. NOT NORMALIZED, but its supposed to be OK
state_df.loc[0, col_names.tag] = 0
change0 = depth1_gain(state_df)
state_df.loc[0, col_names.tag] = 1
change1 = depth1_gain(state_df)
cn.add_experiment_param("5_spits_with_prob_kfold_gain")
return p0 * change0 + p1 * change1
def __init__(self, sent_df, col_names, init_text_state=None):
# type: (pd.DataFrame, ColumnNames, str) -> None
super(BestInstanceProblem, self).__init__()
cn.inst_count += 1
self.sent_pool_df = sent_df
self.col_names = col_names
cn.add_experiment_param(cn.ss_type.__name__)
if init_text_state is not None:
init_row = sent_df[sent_df[col_names.text] == init_text_state]
assert len(init_row) != 0, "init_text_state not in send_df"
# initial_state is used in BestInstanceProblem
self.initial_state = cn.ss_type(init_row.index[0],
self.sent_pool_df, col_names)
self.init_states = None
def compare_generation_methods_pools():
experiment_name = 'small_train_compare_generation_methods_pools'
print experiment_name
# prepare the different splits of $data_df
balanced_train_df, validation_data_df = prepare_balanced_dataset(
print_expert_acc=False)
all_sents = list(balanced_train_df[cn.col_names.text])
tns = 40
prepare_pools_funcs = list()
# prepare_pools_funcs.append(curr_pool_gen_template("uncertainty lc LogReg"))
#
# # prepare_pools_funcs.append(local_search_gen_template("uncertainty lc LogReg", 2))
# prepare_pools_funcs.append(local_search_gen_template("uncertainty lc LogReg", 2))
# # prepare_pools_funcs.append(local_search_gen_template("uncertainty lc LogReg", 10))
# # prepare_pools_funcs.append(local_search_gen_template("uncertainty lc LogReg", 0, use_enhanced=True))
# # prepare_pools_funcs.append(local_search_gen_template("uncertainty lc LogReg", 5, use_enhanced=True))
# # prepare_pools_funcs.append(local_search_gen_template("uncertainty lc LogReg", 10, use_enhanced=True))
# prepare_pools_funcs.append(local_search_gen_template("random-score", 2))
# # prepare_pools_funcs.append(local_search_gen_template("random-score", 0))
#
# # prepare_pools_funcs.append(curr_pool_gen_template("test-data-gain"))
# prepare_pools_funcs.append(generate_pool_using_random_synthesis())
# prepare_pools_funcs.append(prepare_orig_examples_pools())
# prepare_pools_funcs.append(generate_pool_lecun_augmentation())
prepare_pools_funcs.append(generate_sents_using_lstm_generator())
final_scoring_fun = partial(
lambda en_df: run_classifier(en_df, validation_data_df).acc)
insertion_order_heuristic = find_heuristic("uncertainty lc LogReg")()
# insertion_order_heuristic = find_heuristic("test-data-gain")()
cn.add_experiment_param(insertion_order_heuristic.__name__)
cn.experiment_purpose += "insertion order using " + insertion_order_heuristic.__name__ + " "
print cn.experiment_purpose
table_headers = ['#added examples']
data = [[0]]
for pool_name, prepare_pool_fun in prepare_pools_funcs:
init_score = final_scoring_fun(balanced_train_df)
print pool_name
gen_pool_df, labeled_pool_df = prepare_pool_fun(
all_sents, balanced_train_df, cn.col_names, tns)
trn_ds, lbr, extractor = prepare_trn_ds(balanced_train_df, gen_pool_df,
labeled_pool_df)
print pool_name
query_num, pool_insr_scores = insert_in_AL_fashion(
trn_ds,
final_scoring_fun,
lbr,
insertion_order_heuristic,
labeled_pool_df,
quota=tns)
# query_num, pool_insr_scores = insert_in_batch_AL(trn_ds, final_scoring_fun, lbr, insertion_order_heuristic,
# labeled_pool_df, quota=tns, batch_num=5)
pool_insr_scores[0] = init_score
data[0] = query_num if len(data[0]) < len(query_num) else data[0]
table_headers.append(pool_name)
data.append(pool_insr_scores)
return experiment_name, table_headers, data, plot_compare_generation_methods
def compare_pool_generation_methods_proper_al():
experiment_name = 'compare_pool_generation_methods_proper_AL'
print experiment_name
# prepare the different splits of $data_df
balanced_train_df, validation_data_df = prepare_balanced_dataset()
all_sents = list(balanced_train_df[cn.col_names.text])
prepare_pools_funcs = list()
# prepare_pools_funcs.append(curr_pool_gen_template("uncertainty lc LogReg"))
# prepare_pools_funcs.append(curr_pool_gen_template("random-score"))
# prepare_pools_funcs.append(local_search_gen_template("uncertainty lc LogReg", 5))
# prepare_pools_funcs.append(local_search_gen_template("uncertainty lc LogReg", 5, use_enhanced=True))
# prepare_pools_funcs.append(local_search_gen_template("random-score", 5))
# prepare_pools_funcs.append(generate_pool_using_random_synthesis())
# prepare_pools_funcs.append(prepare_orig_examples_pools())
# prepare_pools_funcs.append(generate_pool_lecun_augmentation())
prepare_pools_funcs.append(generate_sents_using_lstm_generator())
final_scoring_fun = partial(
lambda en_df: run_classifier(en_df, validation_data_df).acc)
cn.add_experiment_param("tns_" + str(total_new_sents))
cn.add_experiment_param("pool_size" + str(pool_size_each_step))
cn.add_experiment_param("batch_size" + str(examples_at_each_step))
print cn.experiment_purpose
def do_one_AL_cycle(pool_gen_fun, curr_training_df):
done_generating = False
sent_pool = set(curr_training_df[cn.col_names.text])
gen_pool_df, labeled_pool_df = pool_gen_fun(list(sent_pool),
curr_training_df,
cn.col_names,
pool_size_each_step)
if len(gen_pool_df) > examples_at_each_step:
selected_instance_idxs = select_from_pool_uncertainty(
gen_pool_df, balanced_train_df, cn.col_names, sent_pool,
examples_at_each_step)
labeled_instances_df = labeled_pool_df.iloc[
selected_instance_idxs].copy(deep=True).reset_index(drop=True)
else:
labeled_instances_df = labeled_pool_df # all there is, close enough.
if len(gen_pool_df) < examples_at_each_step:
done_generating = True
enriched_train_df = pd.concat([curr_training_df, labeled_instances_df],
ignore_index=True)
return enriched_train_df, final_scoring_fun(
enriched_train_df), done_generating
table_headers = ['#added examples']
data = [
range(0, total_new_sents + examples_at_each_step,
examples_at_each_step)
]
for pool_name, prepare_pool_fun in prepare_pools_funcs:
start_time = time.time()
print "starting {0} - {1}".format(pool_name, cn.data_name)
curr_training_df = balanced_train_df.copy(deep=True)
res_list = [final_scoring_fun(curr_training_df)]
for i in range(0, total_new_sents,
examples_at_each_step): # has to be serial
print_progress(i, total=total_new_sents)
sa = time.time()
curr_training_df, curr_add_res, done = do_one_AL_cycle(
prepare_pool_fun, curr_training_df)
if done:
break
res_list.append(curr_add_res)
print "AL cycle took {0:.2f} s".format(time.time() - sa)
print "{0} run time: {1:.2f} minutes - {2}".format(
pool_name, (time.time() - start_time) / 60.0, cn.data_name)
table_headers.append(pool_name)
data.append(res_list)
return experiment_name, table_headers, data, plot_compare_pool_generation_methods_proper_al
def parmap(f,
X,
nprocs=multiprocessing.cpu_count(),
force_parallel=False,
chunk_size=1):
from ResearchNLP import Constants as cn
from ResearchNLP.util_files import function_cache
if len(X) == 0:
return [] # like map
# nprocs = min(nprocs, cn.max_procs)
if nprocs != multiprocessing.cpu_count() and len(X) < nprocs * chunk_size:
chunk_size = 1 # use chunk_size = 1 if there is enough procs for a batch size of 1
nprocs = max(1, min(nprocs, len(X) / chunk_size)) # at least 1
if len(X) < nprocs:
if cn.verbose and nprocs != multiprocessing.cpu_count():
print "parmap too much procs"
nprocs = len(X) # too much procs
if nprocs == 1 or (cn.serial_parmap and not force_parallel
): # we want it serial (maybe for profiling)
return map(f, X)
def _spawn_fun(input, func):
import random, numpy
from ResearchNLP import Constants as cn2
from ResearchNLP.util_files import function_cache as function_cache2
random.seed(1554 + i)
numpy.random.seed(42 + i) # set random seeds
try:
res = func(input)
res_dict = dict()
res_dict["res"] = res
res_dict["functions_dict"] = function_cache2.caches_dicts
res_dict["experiment_purpose"] = cn2.experiment_purpose
res_dict["curr_params_list"] = cn2.curr_experiment_params_list
return res_dict
except:
import traceback
traceback.print_exc()
raise # re-raise exception
# if chunk_size == 1:
# chunk_size = math.ceil(float(len(X)) / nprocs) # all procs work on an equal chunk
try: # try-catch hides bugs
global proc_count
old_proc_count = proc_count
proc_count = nprocs
p = Pool(nprocs)
p.restart(force=True)
retval_par = p.map(
_spawn_fun, X, [f] * len(X),
chunk_size=chunk_size) # can throw if current proc is daemon
p.terminate()
for res_dict in retval_par: # add all experiments params we missed
curr_params_list = res_dict["curr_params_list"]
for param in curr_params_list:
cn.add_experiment_param(param)
cn.experiment_purpose = retval_par[0][
"experiment_purpose"] # use the "experiment_purpose" from the fork
function_cache.merge_cache_dicts_from_parallel_runs(
map(lambda a: a["functions_dict"], retval_par)) # merge all
retval = map(lambda res_dict: res_dict["res"],
retval_par) # make it like the original map
proc_count = old_proc_count
global i
i += 1
except AssertionError as e:
if e.message == "daemonic processes are not allowed to have children":
retval = map(f, X) # can't have pool inside pool
else:
print "error message is: " + str(e.message)
raise # re-raise orig exception
return retval
def load_GloVe_model(relpath='glove_models/glove.6B.100d.txt'):
global k_base, kb_type
kb_type = 'GloVe'
save_previous_model()
cn.add_experiment_param(kb_type)
k_base = GloveKB(cn.distance_measure, knowledge_bases_foldpath, relpath)
def load_WordNet_model():
global k_base, kb_type
kb_type = 'WordNet'
save_previous_model()
cn.add_experiment_param(kb_type)
k_base = WordNetKB(cn.distance_measure)
def load_dep_word2vec_model(relpath='word2vec_models/deps_trimmed.words'):
global k_base, kb_type
kb_type = 'dep_w2v'
save_previous_model()
cn.add_experiment_param(kb_type)
k_base = Word2VecKB(cn.distance_measure, knowledge_bases_foldpath, relpath)
