""" Utility function to facilitate testing. """ import os import sys import re import operator from nosetester import import_nose __all__ = ['assert_equal', 'assert_almost_equal','assert_approx_equal', 'assert_array_equal', 'assert_array_less', 'assert_string_equal', 'assert_array_almost_equal', 'assert_raises', 'build_err_msg', 'decorate_methods', 'jiffies', 'memusage', 'print_assert_equal', 'raises', 'rand', 'rundocs', 'runstring', 'verbose'] verbose = 0 def rand(*args): """Returns an array of random numbers with the given shape. This only uses the standard library, so it is useful for testing purposes. """ import random from numpy.core import zeros, float64 results = zeros(args, float64) f = results.flat for i in range(len(f)): f[i] = random.random() return results if sys.platform[:5]=='linux': def jiffies(_proc_pid_stat = '/proc/%s/stat'%(os.getpid()), _load_time=[]): """ Return number of jiffies (1/100ths of a second) that this process has been scheduled in user mode. See man 5 proc. """ import time if not _load_time: _load_time.append(time.time()) 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[0])) 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=[]): """ Return number of jiffies (1/100ths of a second) that this process has been scheduled in user mode. [Emulation with time.time]. """ import time if not _load_time: _load_time.append(time.time()) return int(100*(time.time()-_load_time[0])) def memusage(): """ Return memory usage of running python. [Not implemented]""" raise NotImplementedError if os.name=='nt' and sys.version[:3] > '2.3': # Code "stolen" from enthought/debug/memusage.py def GetPerformanceAttributes(object, counter, instance = None, inum=-1, format = None, machine=None): # NOTE: Many counters require 2 samples to give accurate results, # including "% Processor Time" (as by definition, at any instant, a # thread's CPU usage is either 0 or 100). To read counters like this, # you should copy this function, but keep the counter open, and call # CollectQueryData() each time you need to know. # See http://msdn.microsoft.com/library/en-us/dnperfmo/html/perfmonpt2.asp # My older explanation for this was that the "AddCounter" process forced # the CPU to 100%, but the above makes more sense :) import win32pdh if format is None: format = win32pdh.PDH_FMT_LONG path = win32pdh.MakeCounterPath( (machine,object,instance, None, inum,counter) ) hq = win32pdh.OpenQuery() try: hc = win32pdh.AddCounter(hq, path) try: win32pdh.CollectQueryData(hq) type, val = win32pdh.GetFormattedCounterValue(hc, format) return val finally: win32pdh.RemoveCounter(hc) finally: win32pdh.CloseQuery(hq) def memusage(processName="python", instance=0): # from win32pdhutil, part of the win32all package import win32pdh return GetPerformanceAttributes("Process", "Virtual Bytes", processName, instance, win32pdh.PDH_FMT_LONG, None) def build_err_msg(arrays, err_msg, header='Items are not equal:', verbose=True, names=('ACTUAL', 'DESIRED')): msg = ['\n' + header] if err_msg: if err_msg.find('\n') == -1 and len(err_msg) < 79-len(header): msg = [msg[0] + ' ' + err_msg] else: msg.append(err_msg) if verbose: for i, a in enumerate(arrays): try: r = repr(a) except: r = '[repr failed]' if r.count('\n') > 3: r = '\n'.join(r.splitlines()[:3]) r += '...' msg.append(' %s: %s' % (names[i], r)) return '\n'.join(msg) def assert_equal(actual,desired,err_msg='',verbose=True): """ Raise an assertion if two objects are not equal. Given two objects (lists, tuples, dictionaries or numpy arrays), check that all elements of these objects are equal. An exception is raised at the first conflicting values. Parameters ---------- actual : list, tuple, dict or ndarray The object to check. desired : list, tuple, dict or ndarray The expected object. err_msg : string The error message to be printed in case of failure. verbose : bool If True, the conflicting values are appended to the error message. Raises ------ AssertionError If actual and desired are not equal. Examples -------- >>> np.testing.assert_equal([4,5], [4,6]) # doctest:+ELLIPSIS ... : Items are not equal: item=1 ACTUAL: 5 DESIRED: 6 """ if isinstance(desired, dict): if not isinstance(actual, dict) : raise AssertionError(repr(type(actual))) assert_equal(len(actual),len(desired),err_msg,verbose) for k,i in desired.items(): if k not in actual : raise AssertionError(repr(k)) assert_equal(actual[k], desired[k], 'key=%r\n%s' % (k,err_msg), verbose) return if isinstance(desired, (list,tuple)) and isinstance(actual, (list,tuple)): assert_equal(len(actual),len(desired),err_msg,verbose) for k in range(len(desired)): assert_equal(actual[k], desired[k], 'item=%r\n%s' % (k,err_msg), verbose) return from numpy.core import ndarray if isinstance(actual, ndarray) or isinstance(desired, ndarray): return assert_array_equal(actual, desired, err_msg, verbose) msg = build_err_msg([actual, desired], err_msg, verbose=verbose) if desired != actual : raise AssertionError(msg) def print_assert_equal(test_string,actual,desired): import pprint try: assert(actual == desired) except AssertionError: import cStringIO msg = cStringIO.StringIO() msg.write(test_string) msg.write(' failed\nACTUAL: \n') pprint.pprint(actual,msg) msg.write('DESIRED: \n') pprint.pprint(desired,msg) raise AssertionError(msg.getvalue()) def assert_almost_equal(actual,desired,decimal=7,err_msg='',verbose=True): """ Raise an assertion if two items are not equal. I think this should be part of unittest.py The test is equivalent to abs(desired-actual) < 0.5 * 10**(-decimal) """ from numpy.core import ndarray if isinstance(actual, ndarray) or isinstance(desired, ndarray): return assert_array_almost_equal(actual, desired, decimal, err_msg) msg = build_err_msg([actual, desired], err_msg, verbose=verbose) if round(abs(desired - actual),decimal) != 0 : raise AssertionError(msg) def assert_approx_equal(actual,desired,significant=7,err_msg='',verbose=True): """ 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 """ import math actual, desired = map(float, (actual, desired)) if desired==actual: return # Normalized the numbers to be in range (-10.0,10.0) scale = float(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 msg = build_err_msg([actual, desired], err_msg, header='Items are not equal to %d significant digits:' % significant, verbose=verbose) if math.fabs(sc_desired - sc_actual) >= pow(10.,-(significant-1)) : raise AssertionError(msg) def assert_array_compare(comparison, x, y, err_msg='', verbose=True, header=''): from numpy.core import asarray, isnan, any x = asarray(x) y = asarray(y) def isnumber(x): return x.dtype.char in '?bhilqpBHILQPfdgFDG' try: cond = (x.shape==() or y.shape==()) or x.shape == y.shape if not cond: msg = build_err_msg([x, y], err_msg + '\n(shapes %s, %s mismatch)' % (x.shape, y.shape), verbose=verbose, header=header, names=('x', 'y')) if not cond : raise AssertionError(msg) if (isnumber(x) and isnumber(y)) and (any(isnan(x)) or any(isnan(y))): # Handling nan: we first check that x and y have the nan at the # same locations, and then we mask the nan and do the comparison as # usual. xnanid = isnan(x) ynanid = isnan(y) try: assert_array_equal(xnanid, ynanid) except AssertionError: msg = build_err_msg([x, y], err_msg + '\n(x and y nan location mismatch %s, ' \ '%s mismatch)' % (xnanid, ynanid), verbose=verbose, header=header, names=('x', 'y')) val = comparison(x[~xnanid], y[~ynanid]) else: val = comparison(x,y) if isinstance(val, bool): cond = val reduced = [0] else: reduced = val.ravel() cond = reduced.all() reduced = reduced.tolist() if not cond: match = 100-100.0*reduced.count(1)/len(reduced) msg = build_err_msg([x, y], err_msg + '\n(mismatch %s%%)' % (match,), verbose=verbose, header=header, names=('x', 'y')) if not cond : raise AssertionError(msg) except ValueError: msg = build_err_msg([x, y], err_msg, verbose=verbose, header=header, names=('x', 'y')) raise ValueError(msg) def assert_array_equal(x, y, err_msg='', verbose=True): assert_array_compare(operator.__eq__, x, y, err_msg=err_msg, verbose=verbose, header='Arrays are not equal') def assert_array_almost_equal(x, y, decimal=6, err_msg='', verbose=True): from numpy.core import around def compare(x, y): return around(abs(x-y),decimal) <= 10.0**(-decimal) assert_array_compare(compare, x, y, err_msg=err_msg, verbose=verbose, header='Arrays are not almost equal') def assert_array_less(x, y, err_msg='', verbose=True): assert_array_compare(operator.__lt__, x, y, err_msg=err_msg, verbose=verbose, header='Arrays are not less-ordered') def runstring(astr, dict): exec astr in dict def assert_string_equal(actual, desired): # delay import of difflib to reduce startup time import difflib if not isinstance(actual, str) : raise AssertionError(`type(actual)`) if not isinstance(desired, str): raise AssertionError(`type(desired)`) if re.match(r'\A'+desired+r'\Z', actual, re.M): return diff = list(difflib.Differ().compare(actual.splitlines(1), desired.splitlines(1))) diff_list = [] while diff: d1 = diff.pop(0) if d1.startswith(' '): continue if d1.startswith('- '): l = [d1] d2 = diff.pop(0) if d2.startswith('? '): l.append(d2) d2 = diff.pop(0) if not d2.startswith('+ ') : raise AssertionError(`d2`) l.append(d2) d3 = diff.pop(0) if d3.startswith('? '): l.append(d3) else: diff.insert(0, d3) if re.match(r'\A'+d2[2:]+r'\Z', d1[2:]): continue diff_list.extend(l) continue raise AssertionError(`d1`) if not diff_list: return msg = 'Differences in strings:\n%s' % (''.join(diff_list)).rstrip() if actual != desired : raise AssertionError(msg) def rundocs(filename=None): """ Run doc string tests found in filename. """ import doctest, imp if filename is None: f = sys._getframe(1) filename = f.f_globals['__file__'] name = os.path.splitext(os.path.basename(filename))[0] path = [os.path.dirname(filename)] file, pathname, description = imp.find_module(name, path) try: m = imp.load_module(name, file, pathname, description) finally: file.close() if sys.version[:3]<'2.4': doctest.testmod(m, verbose=False) else: tests = doctest.DocTestFinder().find(m) runner = doctest.DocTestRunner(verbose=False) for test in tests: runner.run(test) return def raises(*args,**kwargs): nose = import_nose() return nose.tools.raises(*args,**kwargs) def assert_raises(*args,**kwargs): nose = import_nose() return nose.tools.assert_raises(*args,**kwargs) def decorate_methods(cls, decorator, testmatch=None): ''' Apply decorator to all methods in class matching testmatch Parameters ---------- cls : class Class to decorate methods for decorator : function Decorator to apply to methods testmatch : compiled regexp or string to compile to regexp Decorators are applied if testmatch.search(methodname) is not None. Default value is re.compile(r'(?:^|[\\b_\\.%s-])[Tt]est' % os.sep) (the default for nose) ''' if testmatch is None: testmatch = re.compile(r'(?:^|[\\b_\\.%s-])[Tt]est' % os.sep) else: testmatch = re.compile(testmatch) cls_attr = cls.__dict__ # delayed import to reduce startup time from inspect import isfunction methods = filter(isfunction, cls_attr.values()) for function in methods: try: if hasattr(function, 'compat_func_name'): funcname = function.compat_func_name else: funcname = function.__name__ except AttributeError: # not a function continue if testmatch.search(funcname) and not funcname.startswith('_'): setattr(cls, funcname, decorator(function)) return def measure(code_str,times=1,label=None): """ 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, 'Test name: %s ' % label, 'exec') i = 0 elapsed = jiffies() while i < times: i += 1 exec code in globs,locs elapsed = jiffies() - elapsed return 0.01*elapsed