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|
"""
Unit-testing
------------
ScipyTest -- Scipy tests site manager
ScipyTestCase -- unittest.TestCase with measure method
IgnoreException -- raise when checking disabled feature ('ignoring' is displayed)
set_package_path -- prepend package build directory to path
set_local_path -- prepend local directory (to tests files) to path
restore_path -- restore path after set_package_path
Timing tools
------------
jiffies -- return 1/100ths of a second that the current process has used
memusage -- virtual memory size in bytes of the running python [linux]
Utility functions
-----------------
assert_equal -- assert equality
assert_almost_equal -- assert equality with decimal tolerance
assert_approx_equal -- assert equality with significant digits tolerance
assert_array_equal -- assert arrays equality
assert_array_almost_equal -- assert arrays equality with decimal tolerance
assert_array_less -- assert arrays less-ordering
rand -- array of random numbers from given shape
"""
__all__ = []
import os,sys,time,glob,string,traceback,unittest
import types
import imp
#
# Imports from scipy_base must be done at the end of this file.
#
DEBUG = 0
__all__.append('set_package_path')
def set_package_path(level=1):
""" Prepend package directory to sys.path.
set_package_path should be called from a test_file.py that
satisfies the following tree structure:
<somepath>/<somedir>/test_file.py
Then the first existing path name from the following list
<somepath>/build/lib.<platform>-<version>
<somepath>/..
is prepended to sys.path.
The caller is responsible for removing this path by using
restore_path()
"""
from distutils.util import get_platform
from scipy_distutils.misc_util import get_frame
f = get_frame(level)
if f.f_locals['__name__']=='__main__':
testfile = sys.argv[0]
else:
testfile = f.f_locals['__file__']
d = os.path.dirname(os.path.dirname(os.path.abspath(testfile)))
d1 = os.path.join(d,'build','lib.%s-%s'%(get_platform(),sys.version[:3]))
if not os.path.isdir(d1):
d1 = os.path.dirname(d)
if DEBUG:
print 'Inserting %r to sys.path' % (d1)
sys.path.insert(0,d1)
__all__.append('set_local_path')
def set_local_path(reldir='', level=1):
""" Prepend local directory to sys.path.
The caller is responsible for removing this path by using
restore_path()
"""
from scipy_distutils.misc_util import get_frame
f = get_frame(level)
if f.f_locals['__name__']=='__main__':
testfile = sys.argv[0]
else:
testfile = f.f_locals['__file__']
local_path = os.path.join(os.path.dirname(os.path.abspath(testfile)),reldir)
if DEBUG:
print 'Inserting %r to sys.path' % (local_path)
sys.path.insert(0,local_path)
__all__.append('restore_path')
def restore_path():
if DEBUG:
print 'Removing %r from sys.path' % (sys.path[0])
del sys.path[0]
__all__.extend(['jiffies','memusage'])
if sys.platform[:5]=='linux':
def jiffies(_proc_pid_stat = '/proc/%s/stat'%(os.getpid()),
_load_time=time.time()):
""" Return number of jiffies (1/100ths of a second) that this
process has been scheduled in user mode. See man 5 proc. """
try:
f=open(_proc_pid_stat,'r')
l = f.readline().split(' ')
f.close()
return int(l[13])
except:
return int(100*(time.time()-_load_time))
def memusage(_proc_pid_stat = '/proc/%s/stat'%(os.getpid())):
""" Return virtual memory size in bytes of the running python.
"""
try:
f=open(_proc_pid_stat,'r')
l = f.readline().split(' ')
f.close()
return int(l[22])
except:
return
else:
# os.getpid is not in all platforms available.
# Using time is safe but inaccurate, especially when process
# was suspended or sleeping.
def jiffies(_load_time=time.time()):
""" Return number of jiffies (1/100ths of a second) that this
process has been scheduled in user mode. [Emulation with time.time]. """
return int(100*(time.time()-_load_time))
def memusage():
""" Return memory usage of running python. [Not implemented]"""
return
__all__.append('ScipyTestCase')
class ScipyTestCase (unittest.TestCase):
def measure(self,code_str,times=1):
""" Return elapsed time for executing code_str in the
namespace of the caller for given times.
"""
frame = sys._getframe(1)
locs,globs = frame.f_locals,frame.f_globals
code = compile(code_str,
'ScipyTestCase runner for '+self.__class__.__name__,
'exec')
i = 0
elapsed = jiffies()
while i<times:
i += 1
exec code in globs,locs
elapsed = jiffies() - elapsed
return 0.01*elapsed
def __call__(self, result=None):
if result is None:
return unittest.TestCase.__call__(self, result)
nof_errors = len(result.errors)
save_stream = result.stream
result.stream = _dummy_stream(save_stream)
unittest.TestCase.__call__(self, result)
if nof_errors != len(result.errors):
test, errstr = result.errors[-1]
if type(errstr) is type(()):
errstr = str(errstr[0])
else:
errstr = errstr.split('\n')[-2]
l = len(result.stream.data)
if errstr.startswith('IgnoreException:'):
if l==1:
assert result.stream.data[-1]=='E',`result.stream.data`
result.stream.data[-1] = 'i'
else:
assert result.stream.data[-1]=='ERROR\n',`result.stream.data`
result.stream.data[-1] = 'ignoring\n'
del result.errors[-1]
map(save_stream.write, result.stream.data)
result.stream = save_stream
class _dummy_stream:
def __init__(self,stream):
self.data = []
self.stream = stream
def write(self,message):
if not self.data and not message.startswith('E'):
self.stream.write(message)
self.stream.flush()
message = ''
self.data.append(message)
def writeln(self,message):
self.write(message+'\n')
__all__.append('IgnoreException')
class IgnoreException(Exception):
"Ignoring this exception due to disabled feature"
#------------
def _get_all_method_names(cls):
names = dir(cls)
if sys.version[:3]<='2.1':
for b in cls.__bases__:
for n in dir(b)+_get_all_method_names(b):
if n not in names:
names.append(n)
return names
__all__.append('ScipyTest')
class ScipyTest:
""" Scipy tests site manager.
Usage:
>>> ScipyTest(<package>).test(level=1,verbosity=2)
<package> is package name or its module object.
Package is supposed to contain a directory tests/
with test_*.py files where * refers to the names of submodules.
test_*.py files are supposed to define a classes, derived
from ScipyTestCase or unittest.TestCase, with methods having
names starting with test or bench or check.
And that is it! No need to implement test or test_suite functions
in each .py file.
Also old styled test_suite(level=1) hooks are supported but
soon to be removed.
"""
def __init__(self, package='__main__'):
self.package = package
def _module_str(self, module):
filename = module.__file__[-30:]
if filename!=module.__file__:
filename = '...'+filename
return '<module %s from %s>' % (`module.__name__`, `filename`)
def _get_method_names(self,clsobj,level):
names = []
for mthname in _get_all_method_names(clsobj):
if mthname[:5] not in ['bench','check'] \
and mthname[:4] not in ['test']:
continue
mth = getattr(clsobj, mthname)
if type(mth) is not types.MethodType:
continue
d = mth.im_func.func_defaults
if d is not None:
mthlevel = d[0]
else:
mthlevel = 1
if level>=mthlevel:
if mthname not in names:
names.append(mthname)
for base in clsobj.__bases__:
for n in self._get_method_names(base,level):
if n not in names:
names.append(n)
return names
def _get_module_tests(self,module,level):
mstr = self._module_str
d,f = os.path.split(module.__file__)
short_module_name = os.path.splitext(os.path.basename(f))[0]
if short_module_name=='__init__':
short_module_name = module.__name__.split('.')[-1]
test_dir = os.path.join(d,'tests')
test_file = os.path.join(test_dir,'test_'+short_module_name+'.py')
local_test_dir = os.path.join(os.getcwd(),'tests')
local_test_file = os.path.join(local_test_dir,
'test_'+short_module_name+'.py')
if os.path.basename(os.path.dirname(local_test_dir)) \
== os.path.basename(os.path.dirname(test_dir)) \
and os.path.isfile(local_test_file):
test_file = local_test_file
if not os.path.isfile(test_file):
if short_module_name[:5]=='info_' \
and short_module_name[5:]==module.__name__.split('.')[-2]:
return []
if short_module_name in ['__cvs_version__','__svn_version__']:
return []
if short_module_name[-8:]=='_version' \
and short_module_name[:-8]==module.__name__.split('.')[-2]:
return []
print ' !! No test file %r found for %s' \
% (os.path.basename(test_file), mstr(module))
return []
try:
if sys.version[:3]=='2.1':
# Workaround for Python 2.1 .pyc file generator bug
import random
pref = '-nopyc'+`random.randint(1,100)`
else:
pref = ''
f = open(test_file,'r')
test_module = imp.load_module(\
module.__name__+'.test_'+short_module_name+pref,
f, test_file+pref,('.py', 'r', 1))
f.close()
if sys.version[:3]=='2.1' and os.path.isfile(test_file+pref+'c'):
os.remove(test_file+pref+'c')
except:
print ' !! FAILURE importing tests for ', mstr(module)
print ' ',
output_exception()
return []
return self._get_suite_list(test_module, level, module.__name__)
def _get_suite_list(self, test_module, level, module_name='__main__'):
mstr = self._module_str
if hasattr(test_module,'test_suite'):
# Using old styled test suite
try:
total_suite = test_module.test_suite(level)
return total_suite._tests
except:
print ' !! FAILURE building tests for ', mstr(test_module)
print ' ',
output_exception()
return []
suite_list = []
for name in dir(test_module):
obj = getattr(test_module, name)
if type(obj) is not type(unittest.TestCase) \
or not issubclass(obj, unittest.TestCase) \
or obj.__name__[:4] != 'test':
continue
for mthname in self._get_method_names(obj,level):
suite = obj(mthname)
if getattr(suite,'isrunnable',lambda mthname:1)(mthname):
suite_list.append(suite)
print ' Found',len(suite_list),'tests for',module_name
return suite_list
def _touch_ppimported(self, module):
from scipy_base.ppimport import _ModuleLoader
if os.path.isdir(os.path.join(os.path.dirname(module.__file__),'tests')):
# only touching those modules that have tests/ directory
try: module._pliuh_plauh
except AttributeError: pass
for name in dir(module):
obj = getattr(module,name)
if isinstance(obj,_ModuleLoader) \
and not hasattr(obj,'_ppimport_module') \
and not hasattr(obj,'_ppimport_exc_info'):
self._touch_ppimported(obj)
def test(self,level=1,verbosity=1):
""" Run Scipy module test suite with level and verbosity.
"""
if type(self.package) is type(''):
exec 'import %s as this_package' % (self.package)
else:
this_package = self.package
self._touch_ppimported(this_package)
package_name = this_package.__name__
suites = []
for name, module in sys.modules.items():
if package_name != name[:len(package_name)] \
or module is None \
or os.path.basename(os.path.dirname(module.__file__))=='tests':
continue
suites.extend(self._get_module_tests(module, level))
suites.extend(self._get_suite_list(sys.modules[package_name], level))
all_tests = unittest.TestSuite(suites)
runner = unittest.TextTestRunner(verbosity=verbosity)
runner.run(all_tests)
return runner
def run(self):
""" Run Scipy module test suite with level and verbosity
taken from sys.argv. Requires optparse module.
"""
try:
from optparse import OptionParser
except ImportError:
print 'Failed to import optparse module, ignoring.'
return self.test()
usage = r'usage: %prog [-v <verbosity>] [-l <level>]'
parser = OptionParser(usage)
parser.add_option("-v", "--verbosity",
action="store",
dest="verbosity",
default=1,
type='int')
parser.add_option("-l", "--level",
action="store",
dest="level",
default=1,
type='int')
(options, args) = parser.parse_args()
self.test(options.level,options.verbosity)
#------------
def remove_ignored_patterns(files,pattern):
from fnmatch import fnmatch
good_files = []
for file in files:
if not fnmatch(file,pattern):
good_files.append(file)
return good_files
def remove_ignored_files(original,ignored_files,cur_dir):
""" This is actually expanded to do pattern matching.
"""
if not ignored_files: ignored_files = []
ignored_modules = map(lambda x: x+'.py',ignored_files)
ignored_packages = ignored_files[:]
# always ignore setup.py and __init__.py files
ignored_files = ['setup.py','setup_*.py','__init__.py']
ignored_files += ignored_modules + ignored_packages
ignored_files = map(lambda x,cur_dir=cur_dir: os.path.join(cur_dir,x),
ignored_files)
#print 'ignored:', ignored_files
#good_files = filter(lambda x,ignored = ignored_files: x not in ignored,
# original)
good_files = original
for pattern in ignored_files:
good_files = remove_ignored_patterns(good_files,pattern)
return good_files
__all__.append('harvest_modules')
def harvest_modules(package,ignore=None):
"""* Retreive a list of all modules that live within a package.
Only retreive files that are immediate children of the
package -- do not recurse through child packages or
directories. The returned list contains actual modules, not
just their names.
*"""
d,f = os.path.split(package.__file__)
# go through the directory and import every py file there.
common_dir = os.path.join(d,'*.py')
py_files = glob.glob(common_dir)
#py_files.remove(os.path.join(d,'__init__.py'))
#py_files.remove(os.path.join(d,'setup.py'))
py_files = remove_ignored_files(py_files,ignore,d)
#print 'py_files:', py_files
try:
prefix = package.__name__
except:
prefix = ''
all_modules = []
for file in py_files:
d,f = os.path.split(file)
base,ext = os.path.splitext(f)
mod = prefix + '.' + base
#print 'module: import ' + mod
try:
exec ('import ' + mod)
all_modules.append(eval(mod))
except:
print 'FAILURE to import ' + mod
output_exception()
return all_modules
__all__.append('harvest_packages')
def harvest_packages(package,ignore = None):
""" Retreive a list of all sub-packages that live within a package.
Only retreive packages that are immediate children of this
package -- do not recurse through child packages or
directories. The returned list contains actual package objects, not
just their names.
"""
join = os.path.join
d,f = os.path.split(package.__file__)
common_dir = os.path.abspath(d)
all_files = os.listdir(d)
all_files = remove_ignored_files(all_files,ignore,'')
#print 'all_files:', all_files
try:
prefix = package.__name__
except:
prefix = ''
all_packages = []
for directory in all_files:
path = join(common_dir,directory)
if os.path.isdir(path) and \
os.path.exists(join(path,'__init__.py')):
sub_package = prefix + '.' + directory
#print 'sub-package import ' + sub_package
try:
exec ('import ' + sub_package)
all_packages.append(eval(sub_package))
except:
print 'FAILURE to import ' + sub_package
output_exception()
return all_packages
__all__.append('harvest_modules_and_packages')
def harvest_modules_and_packages(package,ignore=None):
""" Retreive list of all packages and modules that live within a package.
See harvest_packages() and harvest_modules()
"""
all = harvest_modules(package,ignore) + harvest_packages(package,ignore)
return all
__all__.append('harvest_test_suites')
def harvest_test_suites(package,ignore = None,level=10):
"""
package -- the module to test. This is an actual module object
(not a string)
ignore -- a list of module names to omit from the tests
level -- a value between 1 and 10. 1 will run the minimum number
of tests. This is a fast "smoke test". Tests that take
longer to run should have higher numbers ranging up to 10.
"""
suites=[]
test_modules = harvest_modules_and_packages(package,ignore)
#for i in test_modules:
# print i.__name__
for module in test_modules:
if hasattr(module,'test_suite'):
try:
suite = module.test_suite(level=level)
if suite:
suites.append(suite)
else:
print " !! FAILURE without error - shouldn't happen",
print module.__name__
except:
print ' !! FAILURE building test for ', module.__name__
print ' ',
output_exception()
else:
try:
print 'No test suite found for ', module.__name__
except AttributeError:
# __version__.py getting replaced by a string throws a kink
# in checking for modules, so we think is a module has
# actually been overwritten
print 'No test suite found for ', str(module)
total_suite = unittest.TestSuite(suites)
return total_suite
__all__.append('module_test')
def module_test(mod_name,mod_file,level=10):
"""*
*"""
#print 'testing', mod_name
d,f = os.path.split(mod_file)
# insert the tests directory to the python path
test_dir = os.path.join(d,'tests')
sys.path.insert(0,test_dir)
# call the "test_xxx.test()" function for the appropriate
# module.
# This should deal with package naming issues correctly
short_mod_name = string.split(mod_name,'.')[-1]
test_module = 'test_' + short_mod_name
test_string = 'import %s;reload(%s);%s.test(%d)' % \
((test_module,)*3 + (level,))
# This would be better cause it forces a reload of the orginal
# module. It doesn't behave with packages however.
#test_string = 'reload(%s);import %s;reload(%s);%s.test(%d)' % \
# ((mod_name,) + (test_module,)*3)
exec(test_string)
# remove test directory from python path.
sys.path = sys.path[1:]
__all__.append('module_test_suite')
def module_test_suite(mod_name,mod_file,level=10):
#try:
print ' creating test suite for:', mod_name
d,f = os.path.split(mod_file)
# insert the tests directory to the python path
test_dir = os.path.join(d,'tests')
sys.path.insert(0,test_dir)
# call the "test_xxx.test()" function for the appropriate
# module.
# This should deal with package naming issues correctly
short_mod_name = string.split(mod_name,'.')[-1]
test_module = 'test_' + short_mod_name
test_string = 'import %s;reload(%s);suite = %s.test_suite(%d)' % \
((test_module,)*3+(level,))
#print test_string
exec(test_string)
# remove test directory from python path.
sys.path = sys.path[1:]
return suite
#except:
# print ' !! FAILURE loading test suite from', test_module, ':'
# print ' ',
# output_exception()
# Utility function to facilitate testing.
__all__.append('assert_equal')
def assert_equal(actual,desired,err_msg='',verbose=1):
""" Raise an assertion if two items are not
equal. I think this should be part of unittest.py
"""
if isinstance(actual, ArrayType) or isinstance(desired, ArrayType):
return assert_array_equal(actual, desired, err_msg)
msg = '\nItems are not equal:\n' + err_msg
try:
if ( verbose and len(repr(desired)) < 100 and len(repr(actual)) ):
msg = msg \
+ 'DESIRED: ' + repr(desired) \
+ '\nACTUAL: ' + repr(actual)
except:
msg = msg \
+ 'DESIRED: ' + repr(desired) \
+ '\nACTUAL: ' + repr(actual)
assert desired == actual, msg
__all__.append('assert_almost_equal')
def assert_almost_equal(actual,desired,decimal=7,err_msg='',verbose=1):
""" Raise an assertion if two items are not
equal. I think this should be part of unittest.py
"""
if isinstance(actual, ArrayType) or isinstance(desired, ArrayType):
return assert_array_almost_equal(actual, desired, decimal, err_msg)
msg = '\nItems are not equal:\n' + err_msg
try:
if ( verbose and len(repr(desired)) < 100 and len(repr(actual)) ):
msg = msg \
+ 'DESIRED: ' + repr(desired) \
+ '\nACTUAL: ' + repr(actual)
except:
msg = msg \
+ 'DESIRED: ' + repr(desired) \
+ '\nACTUAL: ' + repr(actual)
assert round(abs(desired - actual),decimal) == 0, msg
__all__.append('assert_approx_equal')
def assert_approx_equal(actual,desired,significant=7,err_msg='',verbose=1):
""" Raise an assertion if two items are not
equal. I think this should be part of unittest.py
Approximately equal is defined as the number of significant digits
correct
"""
msg = '\nItems are not equal to %d significant digits:\n' % significant
msg += err_msg
actual, desired = map(float, (actual, desired))
# Normalized the numbers to be in range (-10.0,10.0)
scale = pow(10,math.floor(math.log10(0.5*(abs(desired)+abs(actual)))))
try:
sc_desired = desired/scale
except ZeroDivisionError:
sc_desired = 0.0
try:
sc_actual = actual/scale
except ZeroDivisionError:
sc_actual = 0.0
try:
if ( verbose and len(repr(desired)) < 100 and len(repr(actual)) ):
msg = msg \
+ 'DESIRED: ' + repr(desired) \
+ '\nACTUAL: ' + repr(actual)
except:
msg = msg \
+ 'DESIRED: ' + repr(desired) \
+ '\nACTUAL: ' + repr(actual)
assert math.fabs(sc_desired - sc_actual) < pow(10.,-1*significant), msg
__all__.append('assert_array_equal')
def assert_array_equal(x,y,err_msg=''):
x,y = asarray(x), asarray(y)
msg = '\nArrays are not equal'
try:
assert 0 in [len(shape(x)),len(shape(y))] \
or (len(shape(x))==len(shape(y)) and \
alltrue(equal(shape(x),shape(y)))),\
msg + ' (shapes %s, %s mismatch):\n\t' \
% (shape(x),shape(y)) + err_msg
reduced = ravel(equal(x,y))
cond = alltrue(reduced)
if not cond:
s1 = array2string(x,precision=16)
s2 = array2string(y,precision=16)
if len(s1)>120: s1 = s1[:120] + '...'
if len(s2)>120: s2 = s2[:120] + '...'
match = 100-100.0*reduced.tolist().count(1)/len(reduced)
msg = msg + ' (mismatch %s%%):\n\tArray 1: %s\n\tArray 2: %s' % (match,s1,s2)
assert cond,\
msg + '\n\t' + err_msg
except ValueError:
raise ValueError, msg
__all__.append('assert_array_almost_equal')
def assert_array_almost_equal(x,y,decimal=6,err_msg=''):
x = asarray(x)
y = asarray(y)
msg = '\nArrays are not almost equal'
try:
cond = alltrue(equal(shape(x),shape(y)))
if not cond:
msg = msg + ' (shapes mismatch):\n\t'\
'Shape of array 1: %s\n\tShape of array 2: %s' % (shape(x),shape(y))
assert cond, msg + '\n\t' + err_msg
reduced = ravel(equal(less_equal(around(abs(x-y),decimal),10.0**(-decimal)),1))
cond = alltrue(reduced)
if not cond:
s1 = array2string(x,precision=decimal+1)
s2 = array2string(y,precision=decimal+1)
if len(s1)>120: s1 = s1[:120] + '...'
if len(s2)>120: s2 = s2[:120] + '...'
match = 100-100.0*reduced.tolist().count(1)/len(reduced)
msg = msg + ' (mismatch %s%%):\n\tArray 1: %s\n\tArray 2: %s' % (match,s1,s2)
assert cond,\
msg + '\n\t' + err_msg
except ValueError:
print sys.exc_value
print shape(x),shape(y)
print x, y
raise ValueError, 'arrays are not almost equal'
__all__.append('assert_array_less')
def assert_array_less(x,y,err_msg=''):
x,y = asarray(x), asarray(y)
msg = '\nArrays are not less-ordered'
try:
assert alltrue(equal(shape(x),shape(y))),\
msg + ' (shapes mismatch):\n\t' + err_msg
reduced = ravel(less(x,y))
cond = alltrue(reduced)
if not cond:
s1 = array2string(x,precision=16)
s2 = array2string(y,precision=16)
if len(s1)>120: s1 = s1[:120] + '...'
if len(s2)>120: s2 = s2[:120] + '...'
match = 100-100.0*reduced.tolist().count(1)/len(reduced)
msg = msg + ' (mismatch %s%%):\n\tArray 1: %s\n\tArray 2: %s' % (match,s1,s2)
assert cond,\
msg + '\n\t' + err_msg
except ValueError:
print shape(x),shape(y)
raise ValueError, 'arrays are not less-ordered'
__all__.append('rand')
def rand(*args):
""" Returns an array of random numbers with the given shape.
used for testing
"""
import random
results = zeros(args,Float64)
f = results.flat
for i in range(len(f)):
f[i] = random.random()
return results
def output_exception():
try:
type, value, tb = sys.exc_info()
info = traceback.extract_tb(tb)
#this is more verbose
#traceback.print_exc()
filename, lineno, function, text = info[-1] # last line only
print "%s:%d: %s: %s (in %s)" %\
(filename, lineno, type.__name__, str(value), function)
finally:
type = value = tb = None # clean up
from scipy.base import alltrue, equal, shape, ravel, around, zeros,\
Float64, asarray, less_equal, array2string, less, ArrayType
try:
import scipy.base.umath as math
except ImportError,msg:
print msg
import math
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