def do_retrieval_experiments(
descriptions='air/problem_descriptions',
solutions='air/solutions',
graph_types=['co-occurrence', 'dependency', 'random'],
use_frequency=True):
"""
Experiment used for comparative evaluation of different network
representations on the retrieval task.
Toggle comparison with frequency-based methods using *use_frequency*.
"""
results = {
'_solutions': solutions,
'_descriptions': descriptions,
'_evaluation': 'retrieval'
}
print '> Evaluation type: retrieval'
print '> Reading cases..'
descriptions_path = '../data/' + descriptions
descriptiondata = data.read_data(descriptions_path, graph_types)
solutions_path = '../data/' + solutions + '_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(
solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Evaluating..'
for gtype in graph_types:
print ' ', gtype
docs, labels = descriptiondata[gtype]
graphs = graph_representation.create_graphs(docs, gtype)
results[gtype] = {}
for metric in graph_representation.get_metrics():
print ' -', metric
vectors = graph_representation.graphs_to_vectors(graphs, metric)
results[gtype][metric] = evaluation.evaluate_retrieval(
vectors, solution_vectors)
if use_frequency:
print ' frequency'
results['freq'] = {}
for metric in freq_representation.get_metrics():
print ' -', metric
docs, labels = data.read_files(descriptions_path + '_preprocessed')
vectors = freq_representation.text_to_vector(docs, metric)
results['freq'][metric] = evaluation.evaluate_retrieval(
vectors, solution_vectors)
print
pp.pprint(results)
return results
def retrieval_demo():
"""Function intended to illustrate retrieval in the experimental framework.
Intended as a basis for new experiments for those not intimately
familiar with the code.
"""
print 'Evaluation type: Retrieval'
print 'Graph type: Dependency'
print 'Centrality: PageRank'
print
print '> Reading data..'
desc_path = '../data/air/problem_descriptions_dependencies'
sol_path = '../data/air/solutions_preprocessed'
problems, _ = data.read_files(desc_path)
solutions, _ = data.read_files(sol_path)
print '> Creating solution representations..'
metric = freq_representation.FrequencyMetrics.TF_IDF
sol_vectors = freq_representation.text_to_vector(solutions, metric)
print '> Creating problem description representations..'
dicts = []
for i, doc in enumerate(problems):
print ' ', str(i) + '/' + str(len(problems))
g = graph_representation.construct_dependency_network(doc)
d = graph_representation.graph_to_dict(g, graph.GraphMetrics.PAGERANK)
dicts.append(d)
desc_vectors = graph_representation.dicts_to_vectors(dicts)
print '> Evaluating..'
score = evaluation.evaluate_retrieval(desc_vectors, sol_vectors)
print ' score:', score
print
def evaluate_tc_icc_retrieval():
graph_metrics = graph_representation.get_metrics(True, exclude_flow=True)
print '> Reading cases..'
corpus = 'air/problem_descriptions'
context = 'window'
solutions_path = '../data/air/solutions_preprocessed'
path = '../data/air/problem_descriptions_preprocessed'
description_texts, labels = data.read_files(path)
rep = {}
icc = {}
print '> Calculating ICCs..'
for metric in graph_metrics:
print ' ', metric
rep[metric] = []
centralities = retrieve_centralities(corpus, context, metric)
if centralities:
icc[metric] = graph_representation.calculate_icc_dict(centralities)
else:
icc[metric] = None
print '> Creating solution representations..'
solutions_texts, labels = data.read_files(solutions_path)
solutions_rep = freq_representation.text_to_vector(
solutions_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating problem description representations..'
for i, text in enumerate(description_texts):
if i % 1 == 0:
print ' document', str(i) + '/' + str(len(description_texts))
g = graph_representation.construct_cooccurrence_network(
text, already_preprocessed=True, context='window')
for metric in graph_metrics:
if not icc[metric]: continue
#~ print ' ',metric
d = graph_representation.graph_to_dict(g, metric, icc[metric])
rep[metric].append(d)
g = None # just to make sure..
print '> Creating vector representations..'
for metric in graph_metrics:
if not icc[metric]: continue
rep[metric] = graph_representation.dicts_to_vectors(rep[metric])
print '> Evaluating..'
results = {}
for metric in graph_metrics:
if not icc[metric]:
results[metric] = None
continue
vectors = rep[metric]
score = evaluation.evaluate_retrieval(vectors, solutions_rep)
print ' ', metric, score
results[metric] = score
pp.pprint(results)
data.pickle_to_file(
results, 'output/tc_icc/cooccurrence/' + corpus + '/retrieval.res')
return results
def retrieval_demo():
"""Function intended to illustrate retrieval in the experimental framework.
Intended as a basis for new experiments for those not intimately
familiar with the code.
"""
print 'Evaluation type: Retrieval'
print 'Graph type: Dependency'
print 'Centrality: PageRank'
print
print '> Reading data..'
desc_path = '../data/air/problem_descriptions_dependencies'
sol_path = '../data/air/solutions_preprocessed'
problems, _ = data.read_files(desc_path)
solutions, _ = data.read_files(sol_path)
print '> Creating solution representations..'
metric = freq_representation.FrequencyMetrics.TF_IDF
sol_vectors = freq_representation.text_to_vector(solutions, metric)
print '> Creating problem description representations..'
dicts = []
for i, doc in enumerate(problems):
print ' ',str(i)+'/'+str(len(problems))
g = graph_representation.construct_dependency_network(doc)
d = graph_representation.graph_to_dict(g, graph.GraphMetrics.PAGERANK)
dicts.append(d)
desc_vectors = graph_representation.dicts_to_vectors(dicts)
print '> Evaluating..'
score = evaluation.evaluate_retrieval(desc_vectors, sol_vectors)
print ' score:', score
print
def test_retrieval(orders=[1,2,3],order_weights=[1.0,1.53,1.51]):
"""
Test retrieval using different combinations of higher orders and weightings of these.
The list *orders* define which higher order relations to include.
The relative importance of the orders are defined by *order_weights*.
"""
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_preprocessed'
description_texts, labels = data.read_files(descriptions_path)
filenames = data.get_file_names(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = []
for i, text in enumerate(description_texts):
print ' '+str(i)+"/"+str(len(description_texts))
g = graph_representation.construct_cooccurrence_network(text, orders=orders, order_weights=order_weights, doc_id='output/higher_order/air/'+labels[i]+'/'+filenames[i])
d = graph_representation.graph_to_dict(g, graph.GraphMetrics.WEIGHTED_DEGREE)
rep.append(d)
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_retrieval(rep, solution_vectors)
print 'orders:', orders
print 'score:', score
fname = 'output/higher_order/results/retr'
with open(fname, 'a+') as f:
s = reduce(lambda x,y:str(x)+str(y), orders)
f.write(str(s)+' '+str(score)+'\n')
return score
def retrieval_comparison_graph(dataset='air', graph_type='co-occurrence', use_icc=False):
"""
Experiment used for comparative evaluation of different network
representations on retrieval.
graph_type = 'co-occurrence' | 'dependency'
`icc` determines whether to use _inverse corpus centrality_ in the vector representations.
"""
def make_dicts(docs, icc=None):
rep = []
for i, doc in enumerate(docs):
if i%100==0: print ' graph',str(i)+'/'+str(len(docs))
g = gfuns[graph_type](doc)
d = graph_representation.graph_to_dict(g, metrics[graph_type], icc)
rep.append(d)
return rep
postfix = {'co-occurrence':'_text', 'dependency':'_dependencies'}
gfuns = {'co-occurrence':graph_representation.construct_cooccurrence_network,
'dependency':graph_representation.construct_dependency_network}
metrics = {'co-occurrence':graph.GraphMetrics.WEIGHTED_DEGREE,
'dependency':graph.GraphMetrics.EIGENVECTOR}
print '--', graph_type
print '> Reading data..', dataset
path = '../data/'+dataset+'/problem_descriptions'+postfix[graph_type]
docs, labels = data.read_files(path)
print '> Creating solution representations..'
solutions_path = '../data/'+dataset+'/solutions_preprocessed'
solutions_texts, labels = data.read_files(solutions_path)
solutions_rep = freq_representation.text_to_vector(solutions_texts, freq_representation.FrequencyMetrics.TF_IDF)
icc = None
if use_icc:
print '> Calculating ICC..'
m = metrics[graph_type].split()[0]
print graph_type
if graph_type == 'co-occurrence':
p = 'output/centralities/co-occurrence/'+dataset+'/problem_descriptions/window/'+m+'.cent'
elif graph_type == 'dependency':
p = 'output/centralities/dependency/'+dataset+'/problem_descriptions/'+m+'.cent'
print ' fetching', p
icc = data.pickle_from_file(p)
print ' icc:', type(icc)
print '> Creating problem description representations..'
dicts = make_dicts(docs, icc)
descriptions_rep = graph_representation.dicts_to_vectors(dicts)#, remove_stop_words=True)
print '> Evaluating..'
results = evaluation.evaluate_retrieval(descriptions_rep, solutions_rep)
print results
s = 'retrieval comparison '
if use_icc: s += 'USING TC-ICC'
s += '\nrepresentation: '+graph_type+'\nresult: '+str(results)+'\n\n\n'
data.write_to_file(s, 'output/comparison/retrieval')
return results
def edge_direction_evaluation(direction):
"""
Evaluate impact of using different edge directions on dependency networks.
Values for *direction*: ``forward``, ``backward``, and ``undirected``.
"""
results = {'_edge-direction':direction}
print '------ CLASSIFICATION EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/tasa/TASA900_dependencies'
texts, labels = data.read_files(descriptions_path)
print '> Creating representations..'
rep = []
for i, text in enumerate(texts):
if i%100==0: print ' ',str(i)+'/'+str(len(texts))
g = graph_representation.construct_dependency_network(text, direction=direction)
metric = graph.GraphMetrics.CLOSENESS
d = graph_representation.graph_to_dict(g, metric)
rep.append(d)
g = None # just to make sure..
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_classification(rep, labels)
print ' score:', score
results['classification'] = score
print '------ RETRIEVAL EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = []
for i, text in enumerate(description_texts):
if i%100==0: print ' ',str(i)+'/'+str(len(description_texts))
g = graph_representation.construct_dependency_network(text, direction=direction)
metric = graph.GraphMetrics.EIGENVECTOR
d = graph_representation.graph_to_dict(g, metric)
rep.append(d)
g = None # just to make sure..
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_retrieval(rep, solution_vectors)
print ' score:', score
results['retrieval'] = score
data.pickle_to_file(results, 'output/dependencies/stop_words_retr_'+direction)
pp.pprint(results)
return results
def centrality_weights_retrieval(weighted=True):
"""
Evaluate whether edge weights are beneficial to the depdendency
network represenation for the retrieval task.
"""
results = {'_is_weighted': weighted, '_evaluation': 'retrieval'}
graph_metrics = graph_representation.get_metrics(weighted)
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(
solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
rep = {}
for metric in graph_metrics:
rep[metric] = []
print '> Creating graph representations..'
for i, text in enumerate(description_texts):
if i % 10 == 0: print ' ', str(i) + '/' + str(len(description_texts))
g = graph_representation.construct_dependency_network(
text, weighted=weighted)
for metric in graph_metrics:
d = graph_representation.graph_to_dict(g, metric)
rep[metric].append(d)
g = None # just to make sure..
if i % 100 == 0:
if weighted:
postfix = '_weighted'
else:
postfix = '_unweighted'
data.pickle_to_file(
rep,
'output/dependencies/exp1_retr_tmp_' + str(i) + '_' + postfix)
print '> Creating vector representations..'
for metric in graph_metrics:
rep[metric] = graph_representation.dicts_to_vectors(rep[metric])
print '> Evaluating..'
for metric in graph_metrics:
vectors = rep[metric]
score = evaluation.evaluate_retrieval(vectors, solution_vectors)
print ' ', metric, score
results[metric] = score
if weighted:
postfix = '_weighted'
else:
postfix = '_unweighted'
data.pickle_to_file(results, 'output/dependencies/exp1_retr' + postfix)
pp.pprint(results)
return results
def do_retrieval_experiments(descriptions='air/problem_descriptions',
solutions='air/solutions',
graph_types=['co-occurrence','dependency','random'],
use_frequency=True):
"""
Experiment used for comparative evaluation of different network
representations on the retrieval task.
Toggle comparison with frequency-based methods using *use_frequency*.
"""
results = {'_solutions':solutions,
'_descriptions':descriptions,
'_evaluation':'retrieval'}
print '> Evaluation type: retrieval'
print '> Reading cases..'
descriptions_path = '../data/'+descriptions
descriptiondata = data.read_data(descriptions_path, graph_types)
solutions_path = '../data/'+solutions+'_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Evaluating..'
for gtype in graph_types:
print ' ',gtype
docs, labels = descriptiondata[gtype]
graphs = graph_representation.create_graphs(docs, gtype)
results[gtype] = {}
for metric in graph_representation.get_metrics():
print ' -', metric
vectors = graph_representation.graphs_to_vectors(graphs, metric)
results[gtype][metric] = evaluation.evaluate_retrieval(vectors, solution_vectors)
if use_frequency:
print ' frequency'
results['freq'] = {}
for metric in freq_representation.get_metrics():
print ' -', metric
docs, labels = data.read_files(descriptions_path+'_preprocessed')
vectors = freq_representation.text_to_vector(docs, metric)
results['freq'][metric] = evaluation.evaluate_retrieval(vectors, solution_vectors)
print
pp.pprint(results)
return results
def evaluate_tc_icc_retrieval():
graph_metrics = graph_representation.get_metrics(True, exclude_flow=True)
print '> Reading cases..'
corpus = 'air/problem_descriptions'
context = 'window'
solutions_path = '../data/air/solutions_preprocessed'
path = '../data/air/problem_descriptions_preprocessed'
description_texts, labels = data.read_files(path)
rep = {}
icc = {}
print '> Calculating ICCs..'
for metric in graph_metrics:
print ' ', metric
rep[metric] = []
centralities = retrieve_centralities(corpus, context, metric)
if centralities:
icc[metric] = graph_representation.calculate_icc_dict(centralities)
else:
icc[metric] = None
print '> Creating solution representations..'
solutions_texts, labels = data.read_files(solutions_path)
solutions_rep = freq_representation.text_to_vector(solutions_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating problem description representations..'
for i, text in enumerate(description_texts):
if i%1==0: print ' document',str(i)+'/'+str(len(description_texts))
g = graph_representation.construct_cooccurrence_network(text, already_preprocessed=True, context='window')
for metric in graph_metrics:
if not icc[metric]: continue
#~ print ' ',metric
d = graph_representation.graph_to_dict(g, metric, icc[metric])
rep[metric].append(d)
g = None # just to make sure..
print '> Creating vector representations..'
for metric in graph_metrics:
if not icc[metric]: continue
rep[metric] = graph_representation.dicts_to_vectors(rep[metric])
print '> Evaluating..'
results = {}
for metric in graph_metrics:
if not icc[metric]:
results[metric] = None
continue
vectors = rep[metric]
score = evaluation.evaluate_retrieval(vectors, solutions_rep)
print ' ', metric, score
results[metric] = score
pp.pprint(results)
data.pickle_to_file(results, 'output/tc_icc/cooccurrence/'+corpus+'/retrieval.res')
return results
def centrality_weights_retrieval(weighted=True):
"""
Evaluate whether edge weights are beneficial to the depdendency
network represenation for the retrieval task.
"""
results = {'_is_weighted':weighted, '_evaluation':'retrieval'}
graph_metrics = graph_representation.get_metrics(weighted)
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
rep = {}
for metric in graph_metrics:
rep[metric] = []
print '> Creating graph representations..'
for i, text in enumerate(description_texts):
if i%10==0: print ' ',str(i)+'/'+str(len(description_texts))
g = graph_representation.construct_dependency_network(text, weighted=weighted)
for metric in graph_metrics:
d = graph_representation.graph_to_dict(g, metric)
rep[metric].append(d)
g = None # just to make sure..
if i%100==0:
if weighted:
postfix = '_weighted'
else:
postfix = '_unweighted'
data.pickle_to_file(rep, 'output/dependencies/exp1_retr_tmp_'+str(i)+'_'+postfix)
print '> Creating vector representations..'
for metric in graph_metrics:
rep[metric] = graph_representation.dicts_to_vectors(rep[metric])
print '> Evaluating..'
for metric in graph_metrics:
vectors = rep[metric]
score = evaluation.evaluate_retrieval(vectors, solution_vectors)
print ' ', metric, score
results[metric] = score
if weighted:
postfix = '_weighted'
else:
postfix = '_unweighted'
data.pickle_to_file(results, 'output/dependencies/exp1_retr'+postfix)
pp.pprint(results)
return results
def do_context_size_evaluation_retrieval():
"""
Experiment evaluating performance of different context sizes for
co-occurrence networks in the retrieval task.
"""
results = {}
graph_metrics = graph_representation.get_metrics()
for metric in graph_metrics:
results[metric] = []
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_preprocessed'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(
solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
for window_size in range(1, 11) + [20, 40, 80]:
print '-- window size:', window_size
rep = {}
for metric in graph_metrics:
rep[metric] = []
print '> Creating representations..'
# creating graphs and finding centralities
for i, text in enumerate(description_texts):
if i % 10 == 0: print i
g = graph_representation.construct_cooccurrence_network(
text, window_size=window_size, already_preprocessed=True)
for metric in graph_metrics:
d = graph_representation.graph_to_dict(g, metric)
rep[metric].append(d)
g = None # just to make sure..
# creating representation vectors
for metric in graph_metrics:
rep[metric] = graph_representation.dicts_to_vectors(rep[metric])
print '> Evaluating..'
for metric in graph_metrics:
vectors = rep[metric]
score = evaluation.evaluate_retrieval(vectors, solution_vectors)
print ' ', metric, score
results[metric].append(score)
data.pickle_to_file(results, 'output/retr_context_' + str(window_size))
pp.pprint(results)
return results
def do_context_size_evaluation_retrieval():
"""
Experiment evaluating performance of different context sizes for
co-occurrence networks in the retrieval task.
"""
results = {}
graph_metrics = graph_representation.get_metrics()
for metric in graph_metrics:
results[metric] = []
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_preprocessed'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
for window_size in range(1,11)+[20,40,80]:
print '-- window size:',window_size
rep = {}
for metric in graph_metrics:
rep[metric] = []
print '> Creating representations..'
# creating graphs and finding centralities
for i, text in enumerate(description_texts):
if i%10==0: print i
g = graph_representation.construct_cooccurrence_network(text, window_size=window_size, already_preprocessed=True)
for metric in graph_metrics:
d = graph_representation.graph_to_dict(g, metric)
rep[metric].append(d)
g = None # just to make sure..
# creating representation vectors
for metric in graph_metrics:
rep[metric] = graph_representation.dicts_to_vectors(rep[metric])
print '> Evaluating..'
for metric in graph_metrics:
vectors = rep[metric]
score = evaluation.evaluate_retrieval(vectors, solution_vectors)
print ' ', metric, score
results[metric].append(score)
data.pickle_to_file(results, 'output/retr_context_'+str(window_size))
pp.pprint(results)
return results
def retrieval_comparison_freq(dataset='mir'):
print '> Reading data..', dataset
path = '../data/'+dataset+'/problem_descriptions_preprocessed'
docs, _ = data.read_files(path)
print '> Creating solution representations..'
solutions_path = '../data/'+dataset+'/solutions_preprocessed'
solutions_docs, _ = data.read_files(solutions_path)
solutions_rep = freq_representation.text_to_vector(solutions_docs, freq_representation.FrequencyMetrics.TF_IDF)
print '> Evaluating..'
results = {}
for metric in freq_representation.get_metrics():
print ' ', metric,
descriptions_rep = freq_representation.text_to_vector(docs, metric)
score = evaluation.evaluate_retrieval(descriptions_rep, solutions_rep)
results[metric] = score
print score
pp.pprint(results)
s = 'retrieval comparison \nrepresentation: frequency\ndataset:'+dataset+' \nresult:\n'+str(results)+'\n\n\n'
data.write_to_file(s, 'output/comparison/retrieval')
return results
def retrieval_comparison_freq(dataset='mir'):
print '> Reading data..', dataset
path = '../data/' + dataset + '/problem_descriptions_preprocessed'
docs, _ = data.read_files(path)
print '> Creating solution representations..'
solutions_path = '../data/' + dataset + '/solutions_preprocessed'
solutions_docs, _ = data.read_files(solutions_path)
solutions_rep = freq_representation.text_to_vector(
solutions_docs, freq_representation.FrequencyMetrics.TF_IDF)
print '> Evaluating..'
results = {}
for metric in freq_representation.get_metrics():
print ' ', metric,
descriptions_rep = freq_representation.text_to_vector(docs, metric)
score = evaluation.evaluate_retrieval(descriptions_rep, solutions_rep)
results[metric] = score
print score
pp.pprint(results)
s = 'retrieval comparison \nrepresentation: frequency\ndataset:' + dataset + ' \nresult:\n' + str(
results) + '\n\n\n'
data.write_to_file(s, 'output/comparison/retrieval')
return results
vec_docs, vec_queries, tfidf_model = tf_idf(docs, queries, tokenize_text)
j = ((vec_queries).toarray())
print(j.shape)
j = ((vec_docs).toarray())
print(j.shape)
print('\nBaseline Retrieval')
sim_matrix = cosine_similarity(vec_docs, vec_queries)
sim_matrix1 = sim_matrix
sim_matrix2 = sim_matrix
if args.verbose:
for i in range(sim_matrix.shape[1]):
ranked_documents = np.argsort(-sim_matrix[:, i])
print('Query:', i + 1, 'Top relevant 10 documents:',
ranked_documents[:10] + 1)
evaluate_retrieval(sim_matrix, gt, verbose=args.verbose)
print('\nRetrieval with Relevance Feedback')
for cnt in range(3):
print("iter:", cnt)
rf_sim_matrix = relevance_feedback(vec_docs, vec_queries, sim_matrix1)
sim_matrix1 = rf_sim_matrix
if args.verbose:
for i in range(rf_sim_matrix.shape[1]):
ranked_documents = np.argsort(-rf_sim_matrix[:, i])
print('Query:', i + 1, 'Top relevant 10 documents:',
ranked_documents[:10] + 1)
evaluate_retrieval(rf_sim_matrix, gt, verbose=args.verbose)
print('\nRetrieval with Relevance Feedback and query expansion')
def edge_direction_evaluation(direction):
"""
Evaluate impact of using different edge directions on dependency networks.
Values for *direction*: ``forward``, ``backward``, and ``undirected``.
"""
results = {'_edge-direction': direction}
print '------ CLASSIFICATION EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/tasa/TASA900_dependencies'
texts, labels = data.read_files(descriptions_path)
print '> Creating representations..'
rep = []
for i, text in enumerate(texts):
if i % 100 == 0: print ' ', str(i) + '/' + str(len(texts))
g = graph_representation.construct_dependency_network(
text, direction=direction)
metric = graph.GraphMetrics.CLOSENESS
d = graph_representation.graph_to_dict(g, metric)
rep.append(d)
g = None # just to make sure..
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_classification(rep, labels)
print ' score:', score
results['classification'] = score
print '------ RETRIEVAL EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(
solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = []
for i, text in enumerate(description_texts):
if i % 100 == 0:
print ' ', str(i) + '/' + str(len(description_texts))
g = graph_representation.construct_dependency_network(
text, direction=direction)
metric = graph.GraphMetrics.EIGENVECTOR
d = graph_representation.graph_to_dict(g, metric)
rep.append(d)
g = None # just to make sure..
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_retrieval(rep, solution_vectors)
print ' score:', score
results['retrieval'] = score
data.pickle_to_file(results,
'output/dependencies/stop_words_retr_' + direction)
pp.pprint(results)
return results
def evaluate_dep_types():
"""
Leave-one-out evaluation of the various dependency types from the stanford parser.
"""
exclude_list = [
'dep', 'aux', 'auxpass', 'cop', 'agent', 'acomp', 'attr', 'ccomp',
'xcomp', 'complm', 'dobj', 'iobj', 'pobj', 'mark', 'rel', 'nsubj',
'nsubjpass', 'csubj', 'csubjpass', 'cc', 'conj', 'expl', 'abbrev',
'amod', 'appos', 'advcl', 'purpcl', 'det', 'predet', 'preconj',
'infmod', 'mwe', 'partmod', 'advmod', 'neg', 'rcmod', 'quantmod',
'tmod', 'nn', 'npadvmod', 'num', 'number', 'prep', 'poss',
'possessive', 'prt', 'parataxis', 'punct', 'ref', 'xsubj', 'pcomp',
'prepc'
]
results = {'classification': [], 'retrieval': []}
print '------ CLASSIFICATION EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/tasa/TASA900_dependencies'
texts, labels = data.read_files(descriptions_path)
print '> Creating representations..'
rep = {}
for exclude_label in exclude_list:
rep[exclude_label] = []
metric = graph.GraphMetrics.CLOSENESS
for i, text in enumerate(texts):
if i % 10 == 0: print ' ', str(i) + '/' + str(len(texts))
full_graph = graph_representation.construct_dependency_network(text)
for exclude_label in exclude_list:
g = graph.reduce_edge_set(full_graph, exclude_label)
d = graph_representation.graph_to_dict(g, metric)
rep[exclude_label].append(d)
g = None # just to make sure..
full_graph = None
for exclude_label in exclude_list:
rep[exclude_label] = graph_representation.dicts_to_vectors(
rep[exclude_label])
print '> Evaluating..'
for exclude_label in exclude_list:
score = evaluation.evaluate_classification(rep[exclude_label], labels)
print ' ', exclude_label, score
results['classification'].append(score)
data.pickle_to_file(results, 'output/dependencies/types_eval_tmp')
print '------ RETRIEVAL EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(
solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = {}
for exclude_label in exclude_list:
rep[exclude_label] = []
metric = graph.GraphMetrics.EIGENVECTOR
for i, text in enumerate(description_texts):
if i % 1 == 0: print ' ', str(i) + '/' + str(len(description_texts))
full_graph = graph_representation.construct_dependency_network(text)
for exclude_label in exclude_list:
g = graph.reduce_edge_set(full_graph, exclude_label)
d = graph_representation.graph_to_dict(g, metric)
rep[exclude_label].append(d)
g = None # just to make sure..
full_graph = None
#~ if i%100==0: data.pickle_to_file(rep, 'output/dependencies/types_eval_rep_'+str(i))
for exclude_label in exclude_list:
rep[exclude_label] = graph_representation.dicts_to_vectors(
rep[exclude_label])
print '> Evaluating..'
for exclude_label in exclude_list:
score = evaluation.evaluate_retrieval(rep[exclude_label],
solution_vectors)
print ' ', exclude_label, score
results['retrieval'].append(score)
pp.pprint(results)
data.pickle_to_file(results, 'output/dependencies/types_eval')
return results
def evaluate_dep_type_sets():
"""
Evaluation of various sets of dependency relations.
Each set is excluded from the representation, and the performance recorded.
The best strategy is to exclude those dependencies which removal lead to the
greatest imporovement for the representation.
"""
strategies = {
'defensive': ['agent', 'advcl', 'parataxis'],
'aggressive': [
'agent', 'advcl', 'parataxis', 'dep', 'aux', 'ccomp', 'xcomp',
'dobj', 'pobj', 'nsubj', 'nsubjpass', 'cc', 'abbrev', 'purpcl',
'predet', 'preconj', 'advmod', 'neg', 'rcmod', 'tmod', 'poss',
'prepc'
],
'compromise_1': [
'agent', 'advcl', 'parataxis', 'aux', 'xcomp', 'pobj', 'nsubjpass',
'cc', 'abbrev', 'purpcl', 'predet', 'neg', 'tmod', 'poss', 'prepc'
],
'compromise_2': [
'agent', 'advcl', 'parataxis', 'aux', 'xcomp', 'pobj', 'nsubjpass',
'cc', 'abbrev', 'purpcl', 'predet', 'neg', 'tmod', 'poss', 'prepc',
'attr', 'csubj', 'csubjpass', 'number', 'possessive', 'punct',
'ref'
]
}
results = {'classification': {}, 'retrieval': {}}
print '------ CLASSIFICATION EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/tasa/TASA900_dependencies'
texts, labels = data.read_files(descriptions_path)
print '> Creating representations..'
rep = {}
for strategy in strategies:
rep[strategy] = []
metric = graph.GraphMetrics.CLOSENESS
for i, text in enumerate(texts):
if i % 10 == 0: print ' ', str(i) + '/' + str(len(texts))
for strategy in strategies:
g = graph_representation.construct_dependency_network(
text, exclude=strategies[strategy])
d = graph_representation.graph_to_dict(g, metric)
rep[strategy].append(d)
g = None # just to make sure. I don't trust this damn garbage collector...
for strategy in strategies:
rep[strategy] = graph_representation.dicts_to_vectors(rep[strategy])
print '> Evaluating..'
for strategy in strategies:
score = evaluation.evaluate_classification(rep[strategy], labels)
print ' ', strategy, score
results['classification'][strategy] = score
data.pickle_to_file(results, 'output/dependencies/types_set_eval_tmp')
print '------ RETRIEVAL EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(
solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = {}
for strategy in strategies:
rep[strategy] = []
metric = graph.GraphMetrics.EIGENVECTOR
for i, text in enumerate(description_texts):
if i % 1 == 0: print ' ', str(i) + '/' + str(len(description_texts))
full_graph = graph_representation.construct_dependency_network(text)
for strategy in strategies:
g = graph_representation.construct_dependency_network(
text, exclude=strategies[strategy])
d = graph_representation.graph_to_dict(g, metric)
rep[strategy].append(d)
g = None # just to make sure..
full_graph = None
#~ if i%100==0: data.pickle_to_file(rep, 'output/dependencies/types_eval_rep_'+str(i))
for strategy in strategies:
rep[strategy] = graph_representation.dicts_to_vectors(rep[strategy])
print '> Evaluating..'
for strategy in strategies:
score = evaluation.evaluate_retrieval(rep[strategy], solution_vectors)
print ' ', strategy, score
results['retrieval'][strategy] = score
pp.pprint(results)
data.pickle_to_file(results, 'output/dependencies/types_set_eval')
return results
def stop_word_evaluation(rem_stop_words):
"""
Experiment for determining what effect removing stop words have on
dependency networks.
"""
results = {'_removing stop-words': rem_stop_words}
print '------ CLASSIFICATION EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/tasa/TASA900_dependencies'
texts, labels = data.read_files(descriptions_path)
print '> Creating representations..'
rep = []
total_nodes = 0
for i, text in enumerate(texts):
if i % 100 == 0: print ' ', str(i) + '/' + str(len(texts))
g = graph_representation.construct_dependency_network(
text, remove_stop_words=rem_stop_words)
total_nodes += len(g.nodes())
metric = graph.GraphMetrics.CLOSENESS
d = graph_representation.graph_to_dict(g, metric)
rep.append(d)
g = None # just to make sure..
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_classification(rep, labels)
print ' score:', score
print '(the networks had a total of', total_nodes, 'nodes)'
results['classification'] = score
print '------ RETRIEVAL EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(
solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = []
total_nodes = 0
for i, text in enumerate(description_texts):
if i % 100 == 0:
print ' ', str(i) + '/' + str(len(description_texts))
g = graph_representation.construct_dependency_network(
text, remove_stop_words=rem_stop_words)
total_nodes += len(g.nodes())
metric = graph.GraphMetrics.EIGENVECTOR
d = graph_representation.graph_to_dict(g, metric)
rep.append(d)
g = None # just to make sure..
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_retrieval(rep, solution_vectors)
print ' score:', score
print '(the networks had a total of', total_nodes, 'nodes)'
results['retrieval'] = score
if rem_stop_words:
postfix = '_without'
else:
postfix = '_with'
data.pickle_to_file(results,
'output/dependencies/stop_words_retr' + postfix)
pp.pprint(results)
return results
def evaluate_dep_types():
"""
Leave-one-out evaluation of the various dependency types from the stanford parser.
"""
exclude_list = ['dep', 'aux', 'auxpass', 'cop', 'agent', 'acomp',
'attr', 'ccomp', 'xcomp', 'complm', 'dobj', 'iobj',
'pobj', 'mark', 'rel', 'nsubj', 'nsubjpass', 'csubj',
'csubjpass', 'cc', 'conj', 'expl', 'abbrev', 'amod',
'appos', 'advcl', 'purpcl', 'det', 'predet', 'preconj',
'infmod', 'mwe', 'partmod', 'advmod', 'neg', 'rcmod',
'quantmod', 'tmod', 'nn', 'npadvmod', 'num', 'number',
'prep', 'poss', 'possessive', 'prt', 'parataxis',
'punct', 'ref', 'xsubj', 'pcomp', 'prepc']
results = {'classification':[], 'retrieval':[]}
print '------ CLASSIFICATION EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/tasa/TASA900_dependencies'
texts, labels = data.read_files(descriptions_path)
print '> Creating representations..'
rep = {}
for exclude_label in exclude_list:
rep[exclude_label] = []
metric = graph.GraphMetrics.CLOSENESS
for i, text in enumerate(texts):
if i%10==0: print ' ',str(i)+'/'+str(len(texts))
full_graph = graph_representation.construct_dependency_network(text)
for exclude_label in exclude_list:
g = graph.reduce_edge_set(full_graph, exclude_label)
d = graph_representation.graph_to_dict(g, metric)
rep[exclude_label].append(d)
g = None # just to make sure..
full_graph = None
for exclude_label in exclude_list:
rep[exclude_label] = graph_representation.dicts_to_vectors(rep[exclude_label])
print '> Evaluating..'
for exclude_label in exclude_list:
score = evaluation.evaluate_classification(rep[exclude_label], labels)
print ' ', exclude_label, score
results['classification'].append(score)
data.pickle_to_file(results, 'output/dependencies/types_eval_tmp')
print '------ RETRIEVAL EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = {}
for exclude_label in exclude_list:
rep[exclude_label] = []
metric = graph.GraphMetrics.EIGENVECTOR
for i, text in enumerate(description_texts):
if i%1==0: print ' ',str(i)+'/'+str(len(description_texts))
full_graph = graph_representation.construct_dependency_network(text)
for exclude_label in exclude_list:
g = graph.reduce_edge_set(full_graph, exclude_label)
d = graph_representation.graph_to_dict(g, metric)
rep[exclude_label].append(d)
g = None # just to make sure..
full_graph = None
#~ if i%100==0: data.pickle_to_file(rep, 'output/dependencies/types_eval_rep_'+str(i))
for exclude_label in exclude_list:
rep[exclude_label] = graph_representation.dicts_to_vectors(rep[exclude_label])
print '> Evaluating..'
for exclude_label in exclude_list:
score = evaluation.evaluate_retrieval(rep[exclude_label], solution_vectors)
print ' ', exclude_label, score
results['retrieval'].append(score)
pp.pprint(results)
data.pickle_to_file(results, 'output/dependencies/types_eval')
return results
def retrieval_comparison_graph(dataset='air',
graph_type='co-occurrence',
use_icc=False):
"""
Experiment used for comparative evaluation of different network
representations on retrieval.
graph_type = 'co-occurrence' | 'dependency'
`icc` determines whether to use _inverse corpus centrality_ in the vector representations.
"""
def make_dicts(docs, icc=None):
rep = []
for i, doc in enumerate(docs):
if i % 100 == 0: print ' graph', str(i) + '/' + str(len(docs))
g = gfuns[graph_type](doc)
d = graph_representation.graph_to_dict(g, metrics[graph_type], icc)
rep.append(d)
return rep
postfix = {'co-occurrence': '_text', 'dependency': '_dependencies'}
gfuns = {
'co-occurrence': graph_representation.construct_cooccurrence_network,
'dependency': graph_representation.construct_dependency_network
}
metrics = {
'co-occurrence': graph.GraphMetrics.WEIGHTED_DEGREE,
'dependency': graph.GraphMetrics.EIGENVECTOR
}
print '--', graph_type
print '> Reading data..', dataset
path = '../data/' + dataset + '/problem_descriptions' + postfix[graph_type]
docs, labels = data.read_files(path)
print '> Creating solution representations..'
solutions_path = '../data/' + dataset + '/solutions_preprocessed'
solutions_texts, labels = data.read_files(solutions_path)
solutions_rep = freq_representation.text_to_vector(
solutions_texts, freq_representation.FrequencyMetrics.TF_IDF)
icc = None
if use_icc:
print '> Calculating ICC..'
m = metrics[graph_type].split()[0]
print graph_type
if graph_type == 'co-occurrence':
p = 'output/centralities/co-occurrence/' + dataset + '/problem_descriptions/window/' + m + '.cent'
elif graph_type == 'dependency':
p = 'output/centralities/dependency/' + dataset + '/problem_descriptions/' + m + '.cent'
print ' fetching', p
icc = data.pickle_from_file(p)
print ' icc:', type(icc)
print '> Creating problem description representations..'
dicts = make_dicts(docs, icc)
descriptions_rep = graph_representation.dicts_to_vectors(
dicts) #, remove_stop_words=True)
print '> Evaluating..'
results = evaluation.evaluate_retrieval(descriptions_rep, solutions_rep)
print results
s = 'retrieval comparison '
if use_icc: s += 'USING TC-ICC'
s += '\nrepresentation: ' + graph_type + '\nresult: ' + str(
results) + '\n\n\n'
data.write_to_file(s, 'output/comparison/retrieval')
return results
def evaluate_dep_type_sets():
"""
Evaluation of various sets of dependency relations.
Each set is excluded from the representation, and the performance recorded.
The best strategy is to exclude those dependencies which removal lead to the
greatest imporovement for the representation.
"""
strategies = {
'defensive': ['agent', 'advcl', 'parataxis'],
'aggressive': ['agent', 'advcl', 'parataxis', 'dep', 'aux', 'ccomp', 'xcomp', 'dobj', 'pobj', 'nsubj', 'nsubjpass', 'cc', 'abbrev', 'purpcl', 'predet', 'preconj', 'advmod', 'neg', 'rcmod', 'tmod', 'poss', 'prepc'],
'compromise_1': ['agent', 'advcl', 'parataxis', 'aux', 'xcomp', 'pobj', 'nsubjpass', 'cc', 'abbrev', 'purpcl', 'predet', 'neg', 'tmod', 'poss', 'prepc'],
'compromise_2': ['agent', 'advcl', 'parataxis', 'aux', 'xcomp', 'pobj', 'nsubjpass', 'cc', 'abbrev', 'purpcl', 'predet', 'neg', 'tmod', 'poss', 'prepc', 'attr', 'csubj', 'csubjpass', 'number', 'possessive', 'punct', 'ref']
}
results = {'classification':{}, 'retrieval':{}}
print '------ CLASSIFICATION EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/tasa/TASA900_dependencies'
texts, labels = data.read_files(descriptions_path)
print '> Creating representations..'
rep = {}
for strategy in strategies:
rep[strategy] = []
metric = graph.GraphMetrics.CLOSENESS
for i, text in enumerate(texts):
if i%10==0: print ' ',str(i)+'/'+str(len(texts))
for strategy in strategies:
g = graph_representation.construct_dependency_network(text, exclude=strategies[strategy])
d = graph_representation.graph_to_dict(g, metric)
rep[strategy].append(d)
g = None # just to make sure. I don't trust this damn garbage collector...
for strategy in strategies:
rep[strategy] = graph_representation.dicts_to_vectors(rep[strategy])
print '> Evaluating..'
for strategy in strategies:
score = evaluation.evaluate_classification(rep[strategy], labels)
print ' ', strategy, score
results['classification'][strategy] = score
data.pickle_to_file(results, 'output/dependencies/types_set_eval_tmp')
print '------ RETRIEVAL EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = {}
for strategy in strategies:
rep[strategy] = []
metric = graph.GraphMetrics.EIGENVECTOR
for i, text in enumerate(description_texts):
if i%1==0: print ' ',str(i)+'/'+str(len(description_texts))
full_graph = graph_representation.construct_dependency_network(text)
for strategy in strategies:
g = graph_representation.construct_dependency_network(text, exclude=strategies[strategy])
d = graph_representation.graph_to_dict(g, metric)
rep[strategy].append(d)
g = None # just to make sure..
full_graph = None
#~ if i%100==0: data.pickle_to_file(rep, 'output/dependencies/types_eval_rep_'+str(i))
for strategy in strategies:
rep[strategy] = graph_representation.dicts_to_vectors(rep[strategy])
print '> Evaluating..'
for strategy in strategies:
score = evaluation.evaluate_retrieval(rep[strategy], solution_vectors)
print ' ', strategy, score
results['retrieval'][strategy] = score
pp.pprint(results)
data.pickle_to_file(results, 'output/dependencies/types_set_eval')
return results
def stop_word_evaluation(rem_stop_words):
"""
Experiment for determining what effect removing stop words have on
dependency networks.
"""
results = {'_removing stop-words':rem_stop_words}
print '------ CLASSIFICATION EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/tasa/TASA900_dependencies'
texts, labels = data.read_files(descriptions_path)
print '> Creating representations..'
rep = []
total_nodes = 0
for i, text in enumerate(texts):
if i%100==0: print ' ',str(i)+'/'+str(len(texts))
g = graph_representation.construct_dependency_network(text, remove_stop_words=rem_stop_words)
total_nodes += len(g.nodes())
metric = graph.GraphMetrics.CLOSENESS
d = graph_representation.graph_to_dict(g, metric)
rep.append(d)
g = None # just to make sure..
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_classification(rep, labels)
print ' score:', score
print '(the networks had a total of',total_nodes,'nodes)'
results['classification'] = score
print '------ RETRIEVAL EVALUATION --------'
print '> Reading cases..'
descriptions_path = '../data/air/problem_descriptions_dependencies'
description_texts, labels = data.read_files(descriptions_path)
solutions_path = '../data/air/solutions_preprocessed'
solution_texts, labels = data.read_files(solutions_path)
solution_vectors = freq_representation.text_to_vector(solution_texts, freq_representation.FrequencyMetrics.TF_IDF)
print '> Creating representations..'
rep = []
total_nodes = 0
for i, text in enumerate(description_texts):
if i%100==0: print ' ',str(i)+'/'+str(len(description_texts))
g = graph_representation.construct_dependency_network(text, remove_stop_words=rem_stop_words)
total_nodes += len(g.nodes())
metric = graph.GraphMetrics.EIGENVECTOR
d = graph_representation.graph_to_dict(g, metric)
rep.append(d)
g = None # just to make sure..
rep = graph_representation.dicts_to_vectors(rep)
print '> Evaluating..'
score = evaluation.evaluate_retrieval(rep, solution_vectors)
print ' score:', score
print '(the networks had a total of',total_nodes,'nodes)'
results['retrieval'] = score
if rem_stop_words:
postfix = '_without'
else:
postfix = '_with'
data.pickle_to_file(results, 'output/dependencies/stop_words_retr'+postfix)
pp.pprint(results)
return results