def tearDown(self):
if len(self.backup):
# wipe existing one completely
if cfg.has_section('externals'):
cfg.remove_section('externals')
cfg.add_section('externals')
for o,v in self.backup:
cfg.set('externals', o,v)
# paranoid check
# since order can't be guaranteed, lets check
# each item after sorting
self.assertEqual(sorted(self.cfgstr.split('\n')),
sorted(str(cfg).split('\n')))
def tearDown(self):
if len(self.backup):
# wipe existing one completely
if cfg.has_section('externals'):
cfg.remove_section('externals')
cfg.add_section('externals')
for o, v in self.backup:
cfg.set('externals', o, v)
# paranoid check
# since order can't be guaranteed, lets check
# each item after sorting
self.assertEqual(sorted(self.cfgstr.split('\n')),
sorted(str(cfg).split('\n')))
if not result:
if raise_:
raise exception("Required external '%s' was not found" % dep)
if issueWarning is not None \
and cfg.getboolean('externals', 'issue warning', True):
if issueWarning is True:
warning("Required external '%s' was not found" % dep)
else:
warning(issueWarning)
# store result in config manager
if not cfg.has_section('externals'):
cfg.add_section('externals')
if result:
cfg.set('externals', 'have ' + dep, 'yes')
else:
cfg.set('externals', 'have ' + dep, 'no')
return result
# Bind functions for some versions checks
versions._KNOWN.update({
'shogun': __assign_shogun_version,
'shogun:rev': __assign_shogun_version,
'shogun:full': __assign_shogun_version,
})
def check_all_dependencies(force=False, verbosity=1):
"""
def exists(dep, force=False, raise_=False, issueWarning=None,
exception=RuntimeError):
"""
Test whether a known dependency is installed on the system.
This method allows us to test for individual dependencies without
testing all known dependencies. It also ensures that we only test
for a dependency once.
Parameters
----------
dep : string or list of string
The dependency key(s) to test.
force : boolean
Whether to force the test even if it has already been
performed.
raise_ : boolean, str
Whether to raise an exception if dependency is missing.
If True, it is still conditioned on the global setting
MVPA_EXTERNALS_RAISE_EXCEPTION, while would raise exception
if missing despite the configuration if 'always'.
issueWarning : string or None or True
If string, warning with given message would be thrown.
If True, standard message would be used for the warning
text.
exception : exception, optional
What exception to raise. Defaults to RuntimeError
"""
# if we are provided with a list of deps - go through all of them
if isinstance(dep, (list, tuple)):
results = [ exists(dep_, force, raise_) for dep_ in dep ]
return bool(reduce(lambda x, y: x and y, results, True))
# where to look in cfg
cfgid = 'have ' + dep
# pre-handle raise_ according to the global settings and local argument
if isinstance(raise_, str):
if raise_.lower() == 'always':
raise_ = True
else:
raise ValueError("Unknown value of raise_=%s. "
"Must be bool or 'always'" % raise_)
else: # must be bool conditioned on the global settings
raise_ = (raise_
and cfg.getboolean('externals', 'raise exception', True))
# prevent unnecessary testing
if cfg.has_option('externals', cfgid) \
and not cfg.getboolean('externals', 'retest', default='no') \
and not force:
if __debug__:
debug('EXT', "Skip retesting for '%s'." % dep)
# check whether an exception should be raised, even though the external
# was already tested previously
if not cfg.getboolean('externals', cfgid) and raise_:
raise exception("Required external '%s' was not found" % dep)
return cfg.getboolean('externals', cfgid)
# determine availability of external (non-cached)
# default to 'not found'
result = False
if dep not in _KNOWN:
raise ValueError("%r is not a known dependency key." % (dep,))
else:
# try and load the specific dependency
if __debug__:
debug('EXT', "Checking for the presence of %s" % dep)
# Exceptions which are silently caught while running tests for externals
_caught_exceptions = [ImportError, AttributeError, RuntimeError]
try:
# Suppress NumPy warnings while testing for externals
old_handling = np.seterr(all="ignore")
error_str = ''
try:
exec(_KNOWN[dep])
result = True
except tuple(_caught_exceptions) as e:
error_str = ". Caught exception was: " + str(e)
except Exception as e:
# Add known ones by their names so we don't need to
# actually import anything manually to get those classes
if e.__class__.__name__ in ['RPy_Exception', 'RRuntimeError',
'RPy_RException']:
_caught_exceptions += [e.__class__]
error_str = ". Caught exception was: " + str(e)
else:
raise
finally:
# And restore warnings
np.seterr(**old_handling)
if __debug__:
vstr = ' (%s)' % versions[dep] if dep in versions else ''
debug('EXT', "Presence of %s%s is%s verified%s" %
(dep, vstr, {True: '', False: ' NOT'}[result], error_str))
if not result:
if raise_:
raise exception("Required external '%s' was not found" % dep)
if issueWarning is not None \
and cfg.getboolean('externals', 'issue warning', True):
if issueWarning is True:
warning("Required external '%s' was not found" % dep)
else:
warning(issueWarning)
# store result in config manager
if not cfg.has_section('externals'):
cfg.add_section('externals')
if result:
cfg.set('externals', 'have ' + dep, 'yes')
else:
cfg.set('externals', 'have ' + dep, 'no')
return result