def before_run(self):
# Remove project directory if it already exists
self.delete_project_dir(self.feature_test_name, self.n)
prefs.reset_to_defaults()
# Enable/disable profiling, can be overwritten (e.g. in GeNNConfiguration)
self.set_profiling()
set_device(self.devicename,
directory=self.project_dir,
build_on_run=True, # GeNN doesn't allow building after run
with_output=True, # Generates the results/stdout.txt files
**self.device_kwargs)
# Need chrono header for timing functions
prefs.codegen.cpp.headers += ["<chrono>"]
if self.single_precision:
prefs["core.default_float_dtype"] = brian2.float32
# Set preferences
for key, value in self.extra_prefs.items():
prefs[key] = value
prefs._backup()
# Insert benchmarking code
device.insert_code("before_start", SETUP_TIMER.format(fname=self.benchmark_file))
device.insert_code("before_start", TIME_DIFF.format(name="before_start"))
device.insert_code("after_start", TIME_DIFF.format(name="after_start"))
device.insert_code("before_network_run", TIME_DIFF.format(name="before_run"))
device.insert_code("after_network_run", TIME_DIFF.format(name="after_run"))
device.insert_code("before_end", TIME_DIFF.format(name="before_end"))
device.insert_code("after_end", TIME_DIFF.format(name="after_end"))
device.insert_code("after_end", CLOSE_TIMER)
from brian2.monitors import *
from brian2.importexport import *
from brian2.input import *
from brian2.spatialneuron import *
from brian2.devices import set_device, get_device, device, all_devices, seed
import brian2.devices.cpp_standalone as _cpp_standalone
# preferences
import brian2.core.core_preferences as _core_preferences
prefs.load_preferences()
prefs.do_validation()
prefs._backup()
set_device(all_devices['runtime'])
def restore_initial_state():
'''
Restores internal Brian variables to the state they are in when Brian is imported
Resets ``defaultclock.dt = 0.1*ms``,
`BrianGlobalPreferences._restore` preferences, and set
`BrianObject._scope_current_key` back to 0.
'''
import gc
prefs._restore()
BrianObject._scope_current_key = 0
defaultclock.dt = 0.1 * ms
gc.collect()
def run(codegen_targets=None,
long_tests=False,
test_codegen_independent=True,
test_standalone=None,
test_openmp=False,
test_in_parallel=[
'codegen_independent', 'numpy', 'cython', 'cpp_standalone'
],
reset_preferences=True,
fail_for_not_implemented=True,
build_options=None,
extra_test_dirs=None,
float_dtype=None,
additional_args=None):
'''
Run brian's test suite. Needs an installation of the pytest testing tool.
For testing, the preferences will be reset to the default preferences.
After testing, the user preferences will be restored.
Parameters
----------
codegen_targets : list of str or str
A list of codegeneration targets or a single target, e.g.
``['numpy', 'weave']`` to test. The whole test suite will be repeatedly
run with `codegen.target` set to the respective value. If not
specified, all available code generation targets will be tested.
long_tests : bool, optional
Whether to run tests that take a long time. Defaults to ``False``.
test_codegen_independent : bool, optional
Whether to run tests that are independent of code generation. Defaults
to ``True``.
test_standalone : str, optional
Whether to run tests for a standalone mode. Should be the name of a
standalone mode (e.g. ``'cpp_standalone'``) and expects that a device
of that name and an accordingly named "simple" device (e.g.
``'cpp_standalone_simple'`` exists that can be used for testing (see
`CPPStandaloneSimpleDevice` for details. Defaults to ``None``, meaning
that no standalone device is tested.
test_openmp : bool, optional
Whether to test standalone test with multiple threads and OpenMP. Will
be ignored if ``cpp_standalone`` is not tested. Defaults to ``False``.
reset_preferences : bool, optional
Whether to reset all preferences to the default preferences before
running the test suite. Defaults to ``True`` to get test results
independent of the user's preference settings but can be switched off
when the preferences are actually necessary to pass the tests (e.g. for
device-specific settings).
fail_for_not_implemented : bool, optional
Whether to fail for tests raising a `NotImplementedError`. Defaults to
``True``, but can be switched off for devices known to not implement
all of Brian's features.
build_options : dict, optional
Non-default build options that will be passed as arguments to the
`set_device` call for the device specified in ``test_standalone``.
extra_test_dirs : list of str or str, optional
Additional directories as a list of strings (or a single directory as
a string) that will be searched for additional tests.
float_dtype : np.dtype, optional
Set the dtype to use for floating point variables to a value different
from the default `core.default_float_dtype` setting.
additional_args : list of str, optional
Optional command line arguments to pass to ``pytest``
'''
if pytest is None:
raise ImportError(
'Running the test suite requires the "pytest" package.')
if build_options is None:
build_options = {}
if os.name == 'nt':
test_in_parallel = []
if extra_test_dirs is None:
extra_test_dirs = []
elif isinstance(extra_test_dirs, basestring):
extra_test_dirs = [extra_test_dirs]
if additional_args is None:
additional_args = []
multiprocess_arguments = ['-n', 'auto']
if codegen_targets is None:
codegen_targets = ['numpy']
try:
import scipy.weave
codegen_targets.append('weave')
except ImportError:
try:
import weave
codegen_targets.append('weave')
except ImportError:
pass
try:
import Cython
codegen_targets.append('cython')
except ImportError:
pass
elif isinstance(codegen_targets,
basestring): # allow to give a single target
codegen_targets = [codegen_targets]
dirname = os.path.abspath(os.path.join(os.path.dirname(__file__), '..'))
dirnames = [dirname] + extra_test_dirs
print('Running tests in %s ' % (', '.join(dirnames)), end='')
if codegen_targets:
print('for targets %s' % (', '.join(codegen_targets)), end='')
ex_in = 'including' if long_tests else 'excluding'
print(' (%s long tests)' % ex_in)
print("Running Brian version {} "
"from '{}'".format(brian2.__version__,
os.path.dirname(brian2.__file__)))
all_targets = set(codegen_targets)
if test_standalone:
if not isinstance(test_standalone, basestring):
raise ValueError(
'test_standalone argument has to be the name of a '
'standalone device (e.g. "cpp_standalone")')
if test_standalone not in all_devices:
raise ValueError(
'test_standalone argument "%s" is not a known '
'device. Known devices are: '
'%s' %
(test_standalone, ', '.join(repr(d) for d in all_devices)))
print('Testing standalone')
all_targets.add(test_standalone)
if test_codegen_independent:
print('Testing codegen-independent code')
all_targets.add('codegen_independent')
parallel_tests = all_targets.intersection(set(test_in_parallel))
if parallel_tests:
try:
import xdist
print('Testing with multiple processes for %s' %
', '.join(parallel_tests))
except ImportError:
test_in_parallel = []
if reset_preferences:
print('Resetting to default preferences')
if reset_preferences:
stored_prefs = prefs.as_file
prefs.read_preference_file(StringIO(prefs.defaults_as_file))
# Avoid failures in the tests for user-registered units
import copy
import brian2.units.fundamentalunits as fundamentalunits
old_unit_registry = copy.copy(fundamentalunits.user_unit_register)
fundamentalunits.user_unit_register = fundamentalunits.UnitRegistry()
if float_dtype is not None:
print('Setting dtype for floating point variables to: '
'{}'.format(float_dtype.__name__))
prefs['core.default_float_dtype'] = float_dtype
print()
# Suppress INFO log messages during testing
from brian2.utils.logger import BrianLogger, LOG_LEVELS
log_level = BrianLogger.console_handler.level
BrianLogger.console_handler.setLevel(LOG_LEVELS['WARNING'])
# Switch off code optimization to get faster compilation times
prefs['codegen.cpp.extra_compile_args_gcc'].extend(['-w', '-O0'])
prefs['codegen.cpp.extra_compile_args_msvc'].extend(['-w', '-O0'])
from brian2.devices import set_device
set_device('runtime')
pref_plugin = PreferencePlugin(prefs, fail_for_not_implemented)
try:
success = []
if test_codegen_independent:
print('Running doctests')
# Some doctests do actually use code generation, use numpy for that
prefs['codegen.target'] = 'numpy'
# Always test doctests with 64 bit, to avoid differences in print output
if float_dtype is not None:
prefs['core.default_float_dtype'] = np.float64
sphinx_dir = os.path.abspath(
os.path.join(os.path.dirname(__file__), '..', '..',
'docs_sphinx'))
if os.path.exists(sphinx_dir):
sphinx_doc_dir = [sphinx_dir]
else:
# When running on travis, the source directory is in the SRCDIR
# environment variable
if 'SRCDIR' in os.environ:
sphinx_dir = os.path.abspath(
os.path.join(os.environ['SRCDIR'], 'docs_sphinx'))
if os.path.exists(sphinx_dir):
sphinx_doc_dir = [sphinx_dir]
else:
sphinx_doc_dir = []
else:
sphinx_doc_dir = []
argv = make_argv(dirnames + sphinx_doc_dir, doctests=True)
if 'codegen_independent' in test_in_parallel:
argv.extend(multiprocess_arguments)
success.append(
pytest.main(argv +
additional_args, plugins=[pref_plugin]) == 0)
# Set float_dtype back again if necessary
if float_dtype is not None:
prefs['core.default_float_dtype'] = float_dtype
print('Running tests that do not use code generation')
argv = make_argv(dirnames, "codegen_independent")
if 'codegen_independent' in test_in_parallel:
argv.extend(multiprocess_arguments)
success.append(
pytest.main(argv +
additional_args, plugins=[pref_plugin]) == 0)
clear_caches()
for target in codegen_targets:
print('Running tests for target %s:' % target)
# Also set the target for string-expressions -- otherwise we'd only
# ever test numpy for those
prefs['codegen.target'] = target
markers = "not standalone_only and not codegen_independent"
if not long_tests:
markers += ' and not long'
# explicitly ignore the brian2.hears file for testing, otherwise the
# doctest search will import it, failing on Python 3
argv = make_argv(dirnames, markers)
if target in test_in_parallel:
argv.extend(multiprocess_arguments)
success.append(
pytest.main(argv +
additional_args, plugins=[pref_plugin]) == 0)
clear_caches()
if test_standalone:
from brian2.devices.device import get_device, set_device
set_device(
test_standalone,
directory=None, # use temp directory
with_output=False,
**build_options)
print('Testing standalone device "%s"' % test_standalone)
print(
'Running standalone-compatible standard tests (single run statement)'
)
markers = 'and not long' if not long_tests else ''
markers += ' and not multiple_runs'
argv = make_argv(dirnames, 'standalone_compatible ' + markers)
if test_standalone in test_in_parallel:
argv.extend(multiprocess_arguments)
success.append(
pytest.main(argv +
additional_args, plugins=[pref_plugin]) == 0)
clear_caches()
reset_device()
print(
'Running standalone-compatible standard tests (multiple run statements)'
)
set_device(
test_standalone,
directory=None, # use temp directory
with_output=False,
build_on_run=False,
**build_options)
markers = ' and not long' if not long_tests else ''
markers += ' and multiple_runs'
argv = make_argv(dirnames, 'standalone_compatible' + markers)
if test_standalone in test_in_parallel:
argv.extend(multiprocess_arguments)
success.append(
pytest.main(argv +
additional_args, plugins=[pref_plugin]) == 0)
clear_caches()
reset_device()
if test_openmp and test_standalone == 'cpp_standalone':
# Run all the standalone compatible tests again with 4 threads
set_device(
test_standalone,
directory=None, # use temp directory
with_output=False,
**build_options)
prefs['devices.cpp_standalone.openmp_threads'] = 4
print(
'Running standalone-compatible standard tests with OpenMP (single run statements)'
)
markers = ' and not long' if not long_tests else ''
markers += ' and not multiple_runs'
argv = make_argv(dirnames, 'standalone_compatible' + markers)
success.append(
pytest.main(argv +
additional_args, plugins=[pref_plugin]) == 0)
clear_caches()
reset_device()
set_device(
test_standalone,
directory=None, # use temp directory
with_output=False,
build_on_run=False,
**build_options)
print(
'Running standalone-compatible standard tests with OpenMP (multiple run statements)'
)
markers = ' and not long' if not long_tests else ''
markers += ' and multiple_runs'
argv = make_argv(dirnames, 'standalone_compatible' + markers)
success.append(
pytest.main(argv +
additional_args, plugins=[pref_plugin]) == 0)
clear_caches()
prefs['devices.cpp_standalone.openmp_threads'] = 0
reset_device()
print('Running standalone-specific tests')
exclude_openmp = ' and not openmp' if not test_openmp else ''
argv = make_argv(dirnames, test_standalone + exclude_openmp)
if test_standalone in test_in_parallel:
argv.extend(multiprocess_arguments)
success.append(
pytest.main(argv +
additional_args, plugins=[pref_plugin]) == 0)
clear_caches()
all_success = all(success)
if not all_success:
print(('ERROR: %d/%d test suite(s) did not complete '
'successfully (see above).') %
(len(success) - sum(success), len(success)))
else:
print(('OK: %d/%d test suite(s) did complete '
'successfully.') % (len(success), len(success)))
return all_success
finally:
BrianLogger.console_handler.setLevel(log_level)
if reset_preferences:
# Restore the user preferences
prefs.read_preference_file(StringIO(stored_prefs))
prefs._backup()
fundamentalunits.user_unit_register = old_unit_registry
from brian2.synapses import *
from brian2.monitors import *
from brian2.importexport import *
from brian2.input import *
from brian2.spatialneuron import *
from brian2.devices import set_device, get_device, device, all_devices, seed
import brian2.devices.cpp_standalone as _cpp_standalone
# preferences
import brian2.core.core_preferences as _core_preferences
prefs.load_preferences()
prefs.do_validation()
prefs._backup()
set_device(all_devices['runtime'])
def restore_initial_state():
'''
Restores internal Brian variables to the state they are in when Brian is imported
Resets ``defaultclock.dt = 0.1*ms``,
`BrianGlobalPreferences._restore` preferences, and set
`BrianObject._scope_current_key` back to 0.
'''
import gc
prefs._restore()
BrianObject._scope_current_key = 0
defaultclock.dt = 0.1*ms
gc.collect()
