Change:
As noted by scipy uses the wrong tests. Instead of running its own test-suite, it runs that of numpy. This is because accidentally pkgName was set to in
Most errors are which are harmless according to
The 12 errors that are encountered are in fact 11 deprecation warnings, and one syntax error in a test when setting PYTHONPATH.

Discussion:
<ins> From 8d3cd578f9c0a36d29411c96fa70402a7a56d502 Mon Sep 17 00:00:00 2001 From: Evgeni Burovski <evgeni@burovski.me> Date: Sun, 8 Nov 2015 15:27:22 +0000 Subject: [PATCH] MAINT: update decorators.py module to version 4.0.5 This is commit d6abda0 at https://github.com/micheles/decorator/tree/4.0.5 --- scipy/_lib/decorator.py | 380 +++++++++++++++++++++++++++++++++++++----------- 1 file changed, 293 insertions(+), 87 deletions(-) diff --git a/scipy/_lib/decorator.py b/scipy/_lib/decorator.py index 07d9d21..05f7056 100644 --- a/scipy/_lib/decorator.py +++ b/scipy/_lib/decorator.py @@ -1,48 +1,52 @@ -##########################     LICENCE     ############################### -## -##   Copyright (c) 2005-2011, Michele Simionato -##   All rights reserved. -## -##   Redistributions of source code must retain the above copyright -##   notice, this list of conditions and the following disclaimer. -##   Redistributions in bytecode form must reproduce the above copyright -##   notice, this list of conditions and the following disclaimer in -##   the documentation and/or other materials provided with the -##   distribution. - -##   THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS -##   "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT -##   LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR -##   A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT -##   HOLDERS OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, -##   INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, -##   BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS -##   OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND -##   ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR -##   TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE -##   USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH -##   DAMAGE. +# #########################     LICENSE     ############################ # + +# Copyright (c) 2005-2015, Michele Simionato +# All rights reserved. + +# Redistribution and use in source and binary forms, with or without +# modification, are permitted provided that the following conditions are +# met: + +#   Redistributions of source code must retain the above copyright +#   notice, this list of conditions and the following disclaimer. +#   Redistributions in bytecode form must reproduce the above copyright +#   notice, this list of conditions and the following disclaimer in +#   the documentation and/or other materials provided with the +#   distribution. + +# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS +# "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT +# LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR +# A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT +# HOLDERS OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, +# INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, +# BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS +# OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND +# ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR +# TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE +# USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH +# DAMAGE. """ Decorator module, see http://pypi.python.org/pypi/decorator for the documentation. """ +from __future__ import print_function -from __future__ import division, print_function, absolute_import - -__version__ = '3.3.2' - -__all__ = ["decorator", "FunctionMaker"] - -import sys import re +import sys import inspect -from functools import partial +import operator +import itertools +import collections -from scipy._lib.six import exec_ +__version__ = '4.0.5' if sys.version >= '3': from inspect import getfullargspec + +    def get_init(cls): +        return cls.__init__ else: class getfullargspec(object): "A quick and dirty replacement for getfullargspec for Python 2.X" @@ -51,7 +55,6 @@ else: inspect.getargspec(f) self.kwonlyargs = [] self.kwonlydefaults = None -            self.annotations = getattr(f, '__annotations__', {}) def __iter__(self): yield self.args @@ -59,17 +62,35 @@ else: yield self.varkw yield self.defaults -DEF = re.compile('s*defs*([_w][_wd]*)s*(') +        getargspec = inspect.getargspec + +    def get_init(cls): +        return cls.__init__.__func__ + +# getargspec has been deprecated in Python 3.5 +ArgSpec = collections.namedtuple( +    'ArgSpec', 'args varargs varkw defaults') -# basic functionality +def getargspec(f): +    """A replacement for inspect.getargspec""" +    spec = getfullargspec(f) +    return ArgSpec(spec.args, spec.varargs, spec.varkw, spec.defaults) +DEF = re.compile('s*defs*([_w][_wd]*)s*(') + + +# basic functionality class FunctionMaker(object): """ An object with the ability to create functions with a given signature. It has attributes name, doc, module, signature, defaults, dict and methods update and make. """ + +    # Atomic get-and-increment provided by the GIL +    _compile_count = itertools.count() + def __init__(self, func=None, name=None, signature=None, defaults=None, doc=None, module=None, funcdict=None): self.shortsignature = signature @@ -82,22 +103,32 @@ class FunctionMaker(object): self.module = func.__module__ if inspect.isfunction(func): argspec = getfullargspec(func) +                self.annotations = getattr(func, '__annotations__', {}) for a in ('args', 'varargs', 'varkw', 'defaults', 'kwonlyargs', -                          'kwonlydefaults', 'annotations'): +                          'kwonlydefaults'): setattr(self, a, getattr(argspec, a)) for i, arg in enumerate(self.args): setattr(self, 'arg%d' % i, arg) -                self.signature = inspect.formatargspec( -                    formatvalue=lambda val: "", *argspec)[1:-1] -                allargs = list(self.args) -                if self.varargs: -                    allargs.append('*' + self.varargs) -                if self.varkw: -                    allargs.append('**' + self.varkw) -                try: -                    self.shortsignature = ', '.join(allargs) -                except TypeError:  # exotic signature, valid only in Python 2.X -                    self.shortsignature = self.signature +                if sys.version < '3':  # easy way +                    self.shortsignature = self.signature = ( +                        inspect.formatargspec( +                            formatvalue=lambda val: "", *argspec)[1:-1]) +                else:  # Python 3 way +                    allargs = list(self.args) +                    allshortargs = list(self.args) +                    if self.varargs: +                        allargs.append('*' + self.varargs) +                        allshortargs.append('*' + self.varargs) +                    elif self.kwonlyargs: +                        allargs.append('*')  # single star syntax +                    for a in self.kwonlyargs: +                        allargs.append('%s=None' % a) +                        allshortargs.append('%s=%s' % (a, a)) +                    if self.varkw: +                        allargs.append('**' + self.varkw) +                        allshortargs.append('**' + self.varkw) +                    self.signature = ', '.join(allargs) +                    self.shortsignature = ', '.join(allshortargs) self.dict = func.__dict__.copy() # func=None happens when decorating a caller if name: @@ -122,12 +153,15 @@ class FunctionMaker(object): func.__name__ = self.name func.__doc__ = getattr(self, 'doc', None) func.__dict__ = getattr(self, 'dict', {}) -        if sys.version_info[0] >= 3: -            func.__defaults__ = getattr(self, 'defaults', ()) -        else: -            func.func_defaults = getattr(self, 'defaults', ()) +        func.__defaults__ = getattr(self, 'defaults', ()) func.__kwdefaults__ = getattr(self, 'kwonlydefaults', None) -        callermodule = sys._getframe(3).f_globals.get('__name__', '?') +        func.__annotations__ = getattr(self, 'annotations', None) +        try: +            frame = sys._getframe(3) +        except AttributeError:  # for IronPython and similar implementations +            callermodule = '?' +        else: +            callermodule = frame.f_globals.get('__name__', '?') func.__module__ = getattr(self, 'module', callermodule) func.__dict__.update(kw) @@ -140,16 +174,20 @@ class FunctionMaker(object): raise SyntaxError('not a valid function templaten%s' % src) name = mo.group(1)  # extract the function name names = set([name] + [arg.strip(' *') for arg in -                             self.shortsignature.split(',')]) +                              self.shortsignature.split(',')]) for n in names: if n in ('_func_', '_call_'): raise NameError('%s is overridden inn%s' % (n, src)) if not src.endswith('n'):  # add a newline just for safety src += 'n'  # this is needed in old versions of Python + +        # Ensure each generated function has a unique filename for profilers +        # (such as cProfile) that depend on the tuple of (<filename>, +        # <definition line>, <function name>) being unique. +        filename = '<decorator-gen-%d>' % (next(self._compile_count),) try: -            code = compile(src, '<string>', 'single') -            # print >> sys.stderr, 'Compiling %s' % src -            exec_(code, evaldict) +            code = compile(src, filename, 'single') +            exec(code, evaldict) except: print('Error in generated code:', file=sys.stderr) print(src, file=sys.stderr) @@ -165,9 +203,9 @@ class FunctionMaker(object): doc=None, module=None, addsource=True, **attrs): """ Create a function from the strings name, signature and body. -        evaldict is the evaluation dictionary. If addsource is true an attribute -        __source__ is added to the result. The attributes attrs are added, -        if any. +        evaldict is the evaluation dictionary. If addsource is true an +        attribute __source__ is added to the result. The attributes attrs +        are added, if any. """ if isinstance(obj, str):  # "name(signature)" name, rest = obj.strip().split('(', 1) @@ -180,37 +218,205 @@ class FunctionMaker(object): self = cls(func, name, signature, defaults, doc, module) ibody = 'n'.join('    ' + line for line in body.splitlines()) return self.make('def %(name)s(%(signature)s):n' + ibody, -                        evaldict, addsource, **attrs) +                         evaldict, addsource, **attrs) -def decorator(caller, func=None): +def decorate(func, caller): """ -    decorator(caller) converts a caller function into a decorator; -    decorator(caller, func) decorates a function using a caller. +    decorate(func, caller) decorates a function using a caller. """ -    if func is not None:  # returns a decorated function -        if sys.version_info[0] >= 3: -            evaldict = func.__globals__.copy() +    evaldict = func.__globals__.copy() +    evaldict['_call_'] = caller +    evaldict['_func_'] = func +    fun = FunctionMaker.create( +        func, "return _call_(_func_, %(shortsignature)s)", +        evaldict, __wrapped__=func) +    if hasattr(func, '__qualname__'): +        fun.__qualname__ = func.__qualname__ +    return fun + + +def decorator(caller, _func=None): +    """decorator(caller) converts a caller function into a decorator""" +    if _func is not None:  # return a decorated function +        # this is obsolete behavior; you should use decorate instead +        return decorate(_func, caller) +    # else return a decorator function +    if inspect.isclass(caller): +        name = caller.__name__.lower() +        callerfunc = get_init(caller) +        doc = 'decorator(%s) converts functions/generators into '  +            'factories of %s objects' % (caller.__name__, caller.__name__) +    elif inspect.isfunction(caller): +        if caller.__name__ == '<lambda>': +            name = '_lambda_' else: -            evaldict = func.func_globals.copy() -        evaldict['_call_'] = caller -        evaldict['_func_'] = func +            name = caller.__name__ +        callerfunc = caller +        doc = caller.__doc__ +    else:  # assume caller is an object with a __call__ method +        name = caller.__class__.__name__.lower() +        callerfunc = caller.__call__.__func__ +        doc = caller.__call__.__doc__ +    evaldict = callerfunc.__globals__.copy() +    evaldict['_call_'] = caller +    evaldict['_decorate_'] = decorate +    return FunctionMaker.create( +        '%s(func)' % name, 'return _decorate_(func, _call_)', +        evaldict, doc=doc, module=caller.__module__, +        __wrapped__=caller) + + +# ####################### contextmanager ####################### # + +try:  # Python >= 3.2 +    from contextlib import _GeneratorContextManager +except ImportError:  # Python >= 2.5 +    from contextlib import GeneratorContextManager as _GeneratorContextManager + + +class ContextManager(_GeneratorContextManager): +    def __call__(self, func): +        """Context manager decorator""" return FunctionMaker.create( -            func, "return _call_(_func_, %(shortsignature)s)", -            evaldict, undecorated=func, __wrapped__=func) -    else:  # returns a decorator -        if isinstance(caller, partial): -            return partial(decorator, caller) -        # otherwise assume caller is a function -        first = inspect.getargspec(caller)[0][0]  # first arg -        if sys.version_info[0] >= 3: -            evaldict = caller.__globals__.copy() -        else: -            evaldict = caller.func_globals.copy() -        evaldict['_call_'] = caller -        evaldict['decorator'] = decorator +            func, "with _self_: return _func_(%(shortsignature)s)", +            dict(_self_=self, _func_=func), __wrapped__=func) + +init = getfullargspec(_GeneratorContextManager.__init__) +n_args = len(init.args) +if n_args == 2 and not init.varargs:  # (self, genobj) Python 2.7 +    def __init__(self, g, *a, **k): +        return _GeneratorContextManager.__init__(self, g(*a, **k)) +    ContextManager.__init__ = __init__ +elif n_args == 2 and init.varargs:  # (self, gen, *a, **k) Python 3.4 +    pass +elif n_args == 4:  # (self, gen, args, kwds) Python 3.5 +    def __init__(self, g, *a, **k): +        return _GeneratorContextManager.__init__(self, g, a, k) +    ContextManager.__init__ = __init__ + +contextmanager = decorator(ContextManager) + + +# ############################ dispatch_on ############################ # + +def append(a, vancestors): +    """ +    Append ``a`` to the list of the virtual ancestors, unless it is already +    included. +    """ +    add = True +    for j, va in enumerate(vancestors): +        if issubclass(va, a): +            add = False +            break +        if issubclass(a, va): +            vancestors[j] = a +            add = False +    if add: +        vancestors.append(a) + + +# inspired from simplegeneric by P.J. Eby and functools.singledispatch +def dispatch_on(*dispatch_args): +    """ +    Factory of decorators turning a function into a generic function +    dispatching on the given arguments. +    """ +    assert dispatch_args, 'No dispatch args passed' +    dispatch_str = '(%s,)' % ', '.join(dispatch_args) + +    def check(arguments, wrong=operator.ne, msg=''): +        """Make sure one passes the expected number of arguments""" +        if wrong(len(arguments), len(dispatch_args)): +            raise TypeError('Expected %d arguments, got %d%s' % +                            (len(dispatch_args), len(arguments), msg)) + +    def gen_func_dec(func): +        """Decorator turning a function into a generic function""" + +        # first check the dispatch arguments +        argset = set(getfullargspec(func).args) +        if not set(dispatch_args) <= argset: +            raise NameError('Unknown dispatch arguments %s' % dispatch_str) + +        typemap = {} + +        def vancestors(*types): +            """ +            Get a list of sets of virtual ancestors for the given types +            """ +            check(types) +            ras = [[] for _ in range(len(dispatch_args))] +            for types_ in typemap: +                for t, type_, ra in zip(types, types_, ras): +                    if issubclass(t, type_) and type_ not in t.__mro__: +                        append(type_, ra) +            return [set(ra) for ra in ras] + +        def ancestors(*types): +            """ +            Get a list of virtual MROs, one for each type +            """ +            check(types) +            lists = [] +            for t, vas in zip(types, vancestors(*types)): +                n_vas = len(vas) +                if n_vas > 1: +                    raise RuntimeError( +                        'Ambiguous dispatch for %s: %s' % (t, vas)) +                elif n_vas == 1: +                    va, = vas +                    mro = type('t', (t, va), {}).__mro__[1:] +                else: +                    mro = t.__mro__ +                lists.append(mro[:-1])  # discard t and object +            return lists + +        def register(*types): +            """ +            Decorator to register an implementation for the given types +            """ +            check(types) +            def dec(f): +                check(getfullargspec(f).args, operator.lt, ' in ' + f.__name__) +                typemap[types] = f +                return f +            return dec + +        def dispatch_info(*types): +            """ +            An utility to introspect the dispatch algorithm +            """ +            check(types) +            lst = [] +            for anc in itertools.product(*ancestors(*types)): +                lst.append(tuple(a.__name__ for a in anc)) +            return lst + +        def _dispatch(dispatch_args, *args, **kw): +            types = tuple(type(arg) for arg in dispatch_args) +            try:  # fast path +                f = typemap[types] +            except KeyError: +                pass +            else: +                return f(*args, **kw) +            combinations = itertools.product(*ancestors(*types)) +            next(combinations)  # the first one has been already tried +            for types_ in combinations: +                f = typemap.get(types_) +                if f is not None: +                    return f(*args, **kw) + +            # else call the default implementation +            return func(*args, **kw) + return FunctionMaker.create( -            '%s(%s)' % (caller.__name__, first), -            'return decorator(_call_, %s)' % first, -            evaldict, undecorated=caller, __wrapped__=caller, -            doc=caller.__doc__, module=caller.__module__) +            func, 'return _f_(%s, %%(shortsignature)s)' % dispatch_str, +            dict(_f_=_dispatch), register=register, default=func, +            typemap=typemap, vancestors=vancestors, ancestors=ancestors, +            dispatch_info=dispatch_info, __wrapped__=func) + +    gen_func_dec.__name__ = 'dispatch_on' + dispatch_str +    return gen_func_dec -- 2.6.3 </ins>

}; in buildPythonPackage ( rec { name = "numpy-${version}"; <del> version = "1.10.1"; </del> <ins> version = "1.10.2"; </ins> src = pkgs.fetchurl { url = "mirror://sourceforge/numpy/${name}.tar.gz"; <del> sha256 = "8b9f453f29ce96a14e625100d3dcf8926301d36c5f622623bf8820e748510858"; </del> <ins> sha256 = "23a3befdf955db4d616f8bb77b324680a80a323e0c42a7e8d7388ef578d8ffa9"; </ins> }; disabled = isPyPy;  # WIP

support = import ../development/python-modules/numpy-scipy-support.nix { inherit python; openblas = pkgs.openblasCompat; <del> pkgName = "numpy"; </del> <ins> pkgName = "scipy"; </ins> }; in buildPythonPackage rec { name = "scipy-${version}";

sed -i '0,/from numpy.distutils.core/s//import setuptools;from numpy.distutils.core/' setup.py ''; <ins> # First test: RuntimeWarning: Mean of empty slice. # Second: SyntaxError: invalid syntax. Due to wrapper? # Third: test checks permissions prePatch = '' substituteInPlace scipy/stats/tests/test_stats.py --replace "test_chisquare_masked_arrays" "remove_this_one" rm scipy/linalg/tests/test_lapack.py substituteInPlace scipy/weave/tests/test_catalog.py --replace "test_user" "remove_this_one" ''; </ins> inherit (support) preBuild checkPhase; <ins> patches = [../development/python-modules/scipy-0.16.1-decorator-fix.patch]; </ins> setupPyBuildFlags = [ "--fcompiler='gnu95'" ]; meta = {