def make_deterministic_exp():
Experiment.basic(('participant', 'block', 'trial'),
{'block': {'b': [0, 1, 2]}, 'trial': {'a': [False, True]}},
ordering_by_level={'trial': Ordering(4),
'block': Ordering(4),
'participant': Ordering()},
filename='test.pkl').save()
def participant_context(exp: Experiment, participant: ExperimentSection):
term = Terminal()
exp.session_data['term'] = term
exp.session_data['stimuli'] = [
jpg_to_ascii(os.path.join('stimuli', '{:02}.jpg'.format(i)), background='light', height=term.height - 2)
for i in range(1, 16)
]
with term.fullscreen():
print(term.move(int(term.width//2), int(term.height//2)))
response_type = participant.data['response_type']
instructions = exp.experiment_data['instructions']
for i, instruction in enumerate(instructions, 1):
message = get_message(instruction, response_type)
if message.startswith('_example'):
show_example(term, response_type, message.split('_')[2], exp.session_data['stimuli'],
exp.experiment_data['example_response_message'],
ascii_stimuli=exp.experiment_data.get('ascii_stimuli', True),
stimulus_time=8)
else:
reset(term)
wrapped_multiline_print_at_location(term, message, X_MARGIN, Y_MARGIN, int(term.width//2))
with term.location(term.width//2, term.height - 3):
print('{}/{}'.format(i, len(instructions)))
time.sleep(1) # Ensure we don't accidentally skip a message.
input()
yield
reset(term)
print(exp.experiment_data['exit_message'])
input()
del exp.session_data['term']
def make_manual_exp():
tree = DesignTree([('participant', [Design(ordering=Shuffle(2))]),
('block', [Design(ivs={'b': [0, 1, 2]}, ordering=CompleteCounterbalance())]),
('trial', [Design({'a': [False, True]}, ordering=Shuffle(4))]),
])
exp = Experiment(tree)
exp.set_run_callback(trial)
return exp
def make_deterministic_exp():
Experiment.basic(('participant', 'block', 'trial'), {
'block': {
'b': [0, 1, 2]
},
'trial': {
'a': [False, True]
}
},
ordering_by_level={
'trial': Ordering(4),
'block': Ordering(4),
'participant': Ordering()
},
filename='test.yaml').save()
def main():
exp = Experiment.from_yaml_file(sys.argv[1])
exp.set_run_callback(run_trial)
exp.set_context_manager('participant', participant_context)
exp.set_context_manager('block', block_context)
exp.save()
return 0
def main(args=None):
# The console script created by setuptools takes the cwd off the path.
sys.path.insert(0, os.getcwd())
scheme = Schema({'--debug': bool,
'--delim': str,
'--demo': bool,
'--help': bool,
'--float': Or(None, str),
'--from': Or(None, Use(lambda x: list(map(int, x.split(','))))),
'--nan': Or(None, str),
'--next': Or(None, str),
'--no-index-label': bool,
'--not-finished': bool,
'-o': Or(None, str),
'--skip': Or(None, Use(lambda x: x.split(','))),
'--skip-parents': bool,
'--version': bool,
'<data-file>': Or(None, str),
'<exp-file>': Or(lambda x: x is None, os.path.exists, error='Invalid <exp-file>'),
'<level>': [str],
'<n>': [And(Use(int), lambda n: n > 0)],
'export': bool,
'resume': bool,
'run': bool,
})
options = scheme.validate(docopt(__doc__, argv=args, version=__version__))
if options['--debug']:
logging.basicConfig(level=logging.DEBUG)
if options['run'] or options['resume']:
exp = Experiment.load(options['<exp-file>'])
kwargs = {'demo': options['--demo'],
'parent_callbacks': not options['--skip-parents'],
'resume': options['resume'],
'session_options': options['-o'],
'from_section': options['--from'],
}
if options['--next']:
kwargs.update(section_obj=exp.find_first_not_run(
options['--next'], by_started=not options['--not-finished']))
elif options['resume'] and not options['<n>']:
kwargs.update(section_obj=exp.find_first_partially_run(options['<level>'][0]))
else:
kwargs.update(zip(options['<level>'], options['<n>']))
run_experiment_section(exp, **kwargs)
elif options['export']:
export_experiment_data(options['<exp-file>'], options['<data-file>'],
float_format=options['--float'],
skip_columns=options['--skip'],
index_label=False if options['--no-index-label'] else None,
na_rep=options['--nan'],
sep=options['--delim'])
def load_data(filename, stack=True, collapse_unsuccesful=True, drop_outbound=None, drop_return=None):
if drop_outbound is None:
drop_outbound = []
if drop_return is None:
drop_return = []
df = Experiment.load(filename).dataframe.dropna()
for column, type_ in [
('height', 'int'),
('hip_height', 'float'),
('knee_height', 'float'),
('lowest_height_not_afforded', 'int'),
]:
df[column] = df[column].astype(type_)
df.loc[df.index.get_level_values('participant').isin(drop_outbound), 'outbound'] = None
df.loc[df.index.get_level_values('participant').isin(drop_return), 'return'] = None
df['relative_height'] = df['height'] - df['lowest_height_not_afforded']
df['scaled_height'] = df['height'] / df['lowest_height_not_afforded']
if collapse_unsuccesful:
for phase in _phases:
df.loc[df[phase] == 'unsuccessful', phase] = 'over'
if stack:
df = pd.concat((df, df), keys=_phases, names=['phase'])
df = df.reset_index().set_index(['participant', 'trial', 'phase']).sort()
df['action'] = [row[phase] for (p, t, phase), row in df.iterrows()]
for phase in _phases:
del df[phase]
df = df.dropna()
return df
def make_manual_exp():
tree = DesignTree.new([('participant', [Design(ordering=Shuffle(2))]),
('block', [Design(ivs={'b': [0, 1, 2]}, ordering=CompleteCounterbalance())]),
('trial', [Design({'a': [False, True]}, ordering=Shuffle(4))]),
])
exp = Experiment.new(tree)
exp.add_callback('trial', trial)
return exp
def main():
experiment = Experiment.from_yaml_file(sys.argv[1])
experiment.set_context_manager('participant', setup_participant)
if 'block' in experiment.levels:
experiment.set_context_manager('block', setup_block)
experiment.set_run_callback(run_trial)
experiment.save()
return 0
def make_standard_exp():
exp = Experiment.basic(('participant', 'block', 'trial'),
{'block': [('b', [0, 1, 2])],
'trial': [('a', [False, True])]},
ordering_by_level={'trial': Shuffle(4),
'block': CompleteCounterbalance(),
'participant': Shuffle(2)})
exp.add_callback('trial', trial)
return exp
def test_doc_yaml():
experiment = Experiment.from_yaml_file('tests/doctest.yml')
assert len(experiment) == 40
participant = experiment[1]
assert len(participant) == 2
first_session, second_session = participant
assert len(first_session[1]) == len(second_session[1]) == 4
first_experimental_section = first_session[2]
second_experimental_section = second_session[2]
assert len(first_experimental_section) == 60
assert first_experimental_section[1].level == 'trial'
assert first_experimental_section[1].is_bottom_level
assert len(second_experimental_section) == 2
assert second_experimental_section[1].level == 'block'
assert len(second_experimental_section[1]) == len(second_experimental_section[2]) == 30
def test_exception():
exp = make_blocked_exp()
exp.set_run_callback(bad_trial)
exp.save()
exp.save('test.pkl')
with pytest.raises(QuitSession):
run_experiment_section('test.pkl', participant=1)
exp = Experiment.load('test.pkl')
assert exp.subsection(participant=1, block=1, trial=1).has_started
assert not exp.subsection(participant=1, block=1, trial=1).has_finished
os.remove('test.pkl')
e = QuitSession('message')
assert e.__str__() == 'message'
with pytest.raises(QuitSession):
raise e
def test_exception():
exp = make_blocked_exp()
exp.add_callback('trial', bad_trial)
exp.save()
exp.save('test.yaml')
with pytest.raises(QuitSession):
run_experiment_section('test.yaml', participant=1)
exp = Experiment.load('test.yaml')
assert exp.subsection(participant=1, block=1, trial=1).has_started
assert not exp.subsection(participant=1, block=1, trial=1).has_finished
os.remove('test.yaml')
e = QuitSession('message')
assert e.__str__() == 'message'
with pytest.raises(QuitSession):
raise e
def test_experiment_from_yaml_file():
experiment = Experiment.from_yaml_file('tests/test.yml')
yield check_equality, experiment.filename, 'test.dat'
yield check_equality, experiment.experiment_data, {'data': [1, 2, 3, 4, 5]}
yield check_equality, len(experiment), 2*2*3
participant = experiment.subsection(participant=1)
yield check_equality, participant.level, 'participant'
yield check_equality, len(participant), 3
yield check_equality, participant[1].data['design'], 'practice'
yield check_equality, participant[2].data['design'], participant[3].data['design'], 'test'
practice_session = participant[1]
test_session = participant[2]
yield check_equality, practice_session.level, test_session.level, 'session'
yield check_equality, len(practice_session), 1
yield check_equality, len(test_session), 2
test_block = test_session[1]
yield check_equality, len(test_block), 2*2 + 2*3
yield check_in, (trial.data['difficulty'] for trial in test_block[:4]), [1, 3]
yield check_in, (trial.data['difficulty'] for trial in test_block[5:]), [5, 7]
def test_exp_repr():
make_deterministic_exp()
e = Experiment.load('test.pkl')
assert e == eval(repr(e))
for file in glob('test.pkl*'):
os.remove(file)
def test_demo_parent_has_started():
experiment = Experiment.from_yaml_file('tests/test.yml')
experiment.run_section(experiment[1][2], demo=True)
assert not experiment.has_started
def test_experiment_from_spec():
spec = {
'design':
{
'main':
[
{
'name': 'participant',
'ivs': {'a': [1, 2], 'b': [1, 2]},
'number': 3,
'ordering': 'Shuffle',
},
{
'name': 'session',
'ivs': {'design': ['practice', 'test']},
'design_matrix': [[0], [1], [1]],
},
],
'practice':
[
{
'name': 'block'
},
{
'name': 'trial',
'ivs': {'difficulty': [1, 2]},
'n': 2,
'order': 'Shuffle',
},
],
'test':
[
{
'name': 'block',
'n': 2,
},
[
{
'name': 'trial',
'ivs': {'difficulty': [1, 3]},
'number': 2,
'order': 'Shuffle',
},
{
'ivs': {'difficulty': [5, 7]},
'n': 3,
'order': 'Shuffle',
},
],
],
},
'data': [1, 2, 3, 4, 5],
'file': 'test.dat',
}
experiment = Experiment.from_dict(spec)
yield check_equality, experiment.filename, 'test.dat'
yield check_equality, experiment.experiment_data, {'data': [1, 2, 3, 4, 5]}
yield check_equality, len(experiment), 2*2*3
participant = experiment.subsection(participant=1)
yield check_equality, participant.level, 'participant'
yield check_equality, len(participant), 3
yield check_equality, participant[1].data['design'], 'practice'
yield check_equality, participant[2].data['design'], participant[3].data['design'], 'test'
practice_session = participant[1]
test_session = participant[2]
yield check_equality, practice_session.level, test_session.level, 'session'
yield check_equality, len(practice_session), 1
yield check_equality, len(test_session), 2
test_block = test_session[1]
yield check_equality, len(test_block), 2*2 + 2*3
yield check_in, (trial.data['difficulty'] for trial in test_block[:4]), [1, 3]
yield check_in, (trial.data['difficulty'] for trial in test_block[5:]), [5, 7]
def make_blocked_exp():
exp = Experiment.blocked({'a': [False, True]}, 2,
block_ivs={'b': [0, 1, 2]},
orderings={'trial': Shuffle(4), 'block': CompleteCounterbalance()})
exp.add_callback('trial', trial)
return exp
def make_simple_exp():
ivs = {'a': [False, True], 'b': [0, 1, 2]}
exp = Experiment.within_subjects(ivs, 10, ordering=Shuffle(4))
exp.add_callback('trial', trial)
return exp
def test_cli():
exp = make_blocked_exp()
exp.set_context_manager('participant', participant_context)
exp.set_context_manager('block', block_context)
exp.filename = 'test.pkl'
exp.save()
call_cli('exp run test.pkl --next participant')
exp = Experiment.load('test.pkl')
for row in exp.dataframe.iterrows():
if row[0][0] == 1:
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp --demo run test.pkl participant 2 block 1')
for row in exp.dataframe.iterrows():
if row[0][0] == 1:
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp run test.pkl participant 2 block 1')
exp = Experiment.load('test.pkl')
for row in exp.dataframe.iterrows():
if row[0][0] == 1 or (row[0][0] == 2 and row[0][1] == 1):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp resume test.pkl participant')
exp = Experiment.load('test.pkl')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2:
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp run test.pkl --next trial')
exp = Experiment.load('test.pkl')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2 or row[0] == (3, 1, 1):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp resume test.pkl participant 3 block 1 --demo')
exp = Experiment.load('test.pkl')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2 or row[0] == (3, 1, 1):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp --debug resume test.pkl participant 3 block 1')
exp = Experiment.load('test.pkl')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2 or row[0][:2] == (3, 1):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp run test.pkl participant 3 block 3 --from 3')
exp = Experiment.load('test.pkl')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2 or row[0][:2] == (3, 1) or (row[0][:2] == (3, 3) and row[0][-1] >= 3):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp run test.pkl participant 3 --from 2,4')
exp = Experiment.load('test.pkl')
for row in exp.dataframe.iterrows():
if (row[0][0] <= 2
or row[0][:2] == (3, 1)
or (row[0][:2] == (3, 2) and row[0][-1] >= 4)
or (row[0][:2] == (3, 3) and row[0][2] > 2)):
yield check_trial, row
else:
assert isnan(row[1]['result'])
for file in glob('test.pkl*'):
os.remove(file)
def main(args=None):
# The console script created by setuptools takes the cwd off the path.
sys.path.insert(0, os.getcwd())
scheme = Schema({
'--debug':
bool,
'--delim':
str,
'--demo':
bool,
'--help':
bool,
'--float':
Or(None, str),
'--from':
Or(None, Use(lambda x: list(map(int, x.split(','))))),
'--nan':
Or(None, str),
'--next':
Or(None, str),
'--no-index-label':
bool,
'--not-finished':
bool,
'-o':
Or(None, str),
'--skip':
Or(None, Use(lambda x: x.split(','))),
'--skip-parents':
bool,
'--version':
bool,
'<data-file>':
Or(None, str),
'<exp-file>':
Or(lambda x: x is None, os.path.exists, error='Invalid <exp-file>'),
'<level>': [str],
'<n>': [And(Use(int), lambda n: n > 0)],
'export':
bool,
'resume':
bool,
'run':
bool,
})
options = scheme.validate(docopt(__doc__, argv=args, version=__version__))
if options['--debug']:
logging.basicConfig(level=logging.DEBUG)
if options['run'] or options['resume']:
exp = Experiment.load(options['<exp-file>'])
kwargs = {
'demo': options['--demo'],
'parent_callbacks': not options['--skip-parents'],
'resume': options['resume'],
'session_options': options['-o'],
'from_section': options['--from'],
}
if options['--next']:
kwargs.update(section_obj=exp.find_first_not_run(
options['--next'], by_started=not options['--not-finished']))
elif options['resume'] and not options['<n>']:
kwargs.update(section_obj=exp.find_first_partially_run(
options['<level>'][0]))
else:
kwargs.update(zip(options['<level>'], options['<n>']))
run_experiment_section(exp, **kwargs)
elif options['export']:
export_experiment_data(
options['<exp-file>'],
options['<data-file>'],
float_format=options['--float'],
skip_columns=options['--skip'],
index_label=False if options['--no-index-label'] else None,
na_rep=options['--nan'],
sep=options['--delim'])
def test_cli():
exp = make_blocked_exp()
exp.add_callback('participant', participant_context, is_context=True)
exp.add_callback('block', block_context, is_context=True)
exp.filename = 'test.yaml'
exp.save()
call_cli('exp run test.yaml --next participant')
exp = Experiment.load('test.yaml')
for row in exp.dataframe.iterrows():
if row[0][0] == 1:
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp --demo run test.yaml participant 2 block 1')
for row in exp.dataframe.iterrows():
if row[0][0] == 1:
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp run test.yaml participant 2 block 1')
exp = Experiment.load('test.yaml')
for row in exp.dataframe.iterrows():
if row[0][0] == 1 or (row[0][0] == 2 and row[0][1] == 1):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp resume test.yaml participant')
exp = Experiment.load('test.yaml')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2:
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp run test.yaml --next trial')
exp = Experiment.load('test.yaml')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2 or row[0] == (3, 1, 1):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp resume test.yaml participant 3 block 1 --demo')
exp = Experiment.load('test.yaml')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2 or row[0] == (3, 1, 1):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp --debug resume test.yaml participant 3 block 1')
exp = Experiment.load('test.yaml')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2 or row[0][:2] == (3, 1):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp run test.yaml participant 3 block 3 --from 3')
exp = Experiment.load('test.yaml')
for row in exp.dataframe.iterrows():
if row[0][0] <= 2 or row[0][:2] == (3, 1) or (row[0][:2] == (3, 3)
and row[0][-1] >= 3):
yield check_trial, row
else:
assert isnan(row[1]['result'])
call_cli('exp run test.yaml participant 3 --from 2,4')
exp = Experiment.load('test.yaml')
for row in exp.dataframe.iterrows():
if (row[0][0] <= 2 or row[0][:2] == (3, 1)
or (row[0][:2] == (3, 2) and row[0][-1] >= 4)
or (row[0][:2] == (3, 3) and row[0][2] > 2)):
yield check_trial, row
else:
assert isnan(row[1]['result'])
for file in glob('test.yaml*'):
os.remove(file)
