"""Test the numpy pickler as a replacement of the standard pickler.""" import copy import os import random import sys import re import io import warnings import gzip import zlib import bz2 import pickle import socket from contextlib import closing import mmap from joblib.test.common import np, with_numpy, with_lz4, without_lz4 from joblib.test.common import with_memory_profiler, memory_used from joblib.testing import parametrize, raises, SkipTest, warns # numpy_pickle is not a drop-in replacement of pickle, as it takes # filenames instead of open files as arguments. from joblib import numpy_pickle, register_compressor from joblib.test import data from joblib._compat import PY3_OR_LATER from joblib.numpy_pickle_utils import _IO_BUFFER_SIZE from joblib.numpy_pickle_utils import _detect_compressor from joblib.compressor import (_COMPRESSORS, _LZ4_PREFIX, CompressorWrapper, LZ4_NOT_INSTALLED_ERROR, BinaryZlibFile) ############################################################################### # Define a list of standard types. # Borrowed from dill, initial author: Micheal McKerns: # http://dev.danse.us/trac/pathos/browser/dill/dill_test2.py typelist = [] # testing types _none = None typelist.append(_none) _type = type typelist.append(_type) _bool = bool(1) typelist.append(_bool) _int = int(1) typelist.append(_int) try: _long = long(1) typelist.append(_long) except NameError: # long is not defined in python 3 pass _float = float(1) typelist.append(_float) _complex = complex(1) typelist.append(_complex) _string = str(1) typelist.append(_string) try: _unicode = unicode(1) typelist.append(_unicode) except NameError: # unicode is not defined in python 3 pass _tuple = () typelist.append(_tuple) _list = [] typelist.append(_list) _dict = {} typelist.append(_dict) try: _file = file typelist.append(_file) except NameError: pass # file does not exists in Python 3 try: _buffer = buffer typelist.append(_buffer) except NameError: # buffer does not exists in Python 3 pass _builtin = len typelist.append(_builtin) def _function(x): yield x class _class: def _method(self): pass class _newclass(object): def _method(self): pass typelist.append(_function) typelist.append(_class) typelist.append(_newclass) # _instance = _class() typelist.append(_instance) _object = _newclass() typelist.append(_object) # ############################################################################### # Tests @parametrize('compress', [0, 1]) @parametrize('member', typelist) def test_standard_types(tmpdir, compress, member): # Test pickling and saving with standard types. filename = tmpdir.join('test.pkl').strpath numpy_pickle.dump(member, filename, compress=compress) _member = numpy_pickle.load(filename) # We compare the pickled instance to the reloaded one only if it # can be compared to a copied one if member == copy.deepcopy(member): assert member == _member def test_value_error(): # Test inverting the input arguments to dump with raises(ValueError): numpy_pickle.dump('foo', dict()) @parametrize('wrong_compress', [-1, 10, dict()]) def test_compress_level_error(wrong_compress): # Verify that passing an invalid compress argument raises an error. exception_msg = ('Non valid compress level given: ' '"{0}"'.format(wrong_compress)) with raises(ValueError) as excinfo: numpy_pickle.dump('dummy', 'foo', compress=wrong_compress) excinfo.match(exception_msg) @with_numpy @parametrize('compress', [False, True, 0, 3, 'zlib']) def test_numpy_persistence(tmpdir, compress): filename = tmpdir.join('test.pkl').strpath rnd = np.random.RandomState(0) a = rnd.random_sample((10, 2)) # We use 'a.T' to have a non C-contiguous array. for index, obj in enumerate(((a,), (a.T,), (a, a), [a, a, a])): filenames = numpy_pickle.dump(obj, filename, compress=compress) # All is cached in one file assert len(filenames) == 1 # Check that only one file was created assert filenames[0] == filename # Check that this file does exist assert os.path.exists(filenames[0]) # Unpickle the object obj_ = numpy_pickle.load(filename) # Check that the items are indeed arrays for item in obj_: assert isinstance(item, np.ndarray) # And finally, check that all the values are equal. np.testing.assert_array_equal(np.array(obj), np.array(obj_)) # Now test with array subclasses for obj in (np.matrix(np.zeros(10)), np.memmap(filename + 'mmap', mode='w+', shape=4, dtype=np.float)): filenames = numpy_pickle.dump(obj, filename, compress=compress) # All is cached in one file assert len(filenames) == 1 obj_ = numpy_pickle.load(filename) if (type(obj) is not np.memmap and hasattr(obj, '__array_prepare__')): # We don't reconstruct memmaps assert isinstance(obj_, type(obj)) np.testing.assert_array_equal(obj_, obj) # Test with an object containing multiple numpy arrays obj = ComplexTestObject() filenames = numpy_pickle.dump(obj, filename, compress=compress) # All is cached in one file assert len(filenames) == 1 obj_loaded = numpy_pickle.load(filename) assert isinstance(obj_loaded, type(obj)) np.testing.assert_array_equal(obj_loaded.array_float, obj.array_float) np.testing.assert_array_equal(obj_loaded.array_int, obj.array_int) np.testing.assert_array_equal(obj_loaded.array_obj, obj.array_obj) @with_numpy def test_numpy_persistence_bufferred_array_compression(tmpdir): big_array = np.ones((_IO_BUFFER_SIZE + 100), dtype=np.uint8) filename = tmpdir.join('test.pkl').strpath numpy_pickle.dump(big_array, filename, compress=True) arr_reloaded = numpy_pickle.load(filename) np.testing.assert_array_equal(big_array, arr_reloaded) @with_numpy def test_memmap_persistence(tmpdir): rnd = np.random.RandomState(0) a = rnd.random_sample(10) filename = tmpdir.join('test1.pkl').strpath numpy_pickle.dump(a, filename) b = numpy_pickle.load(filename, mmap_mode='r') assert isinstance(b, np.memmap) # Test with an object containing multiple numpy arrays filename = tmpdir.join('test2.pkl').strpath obj = ComplexTestObject() numpy_pickle.dump(obj, filename) obj_loaded = numpy_pickle.load(filename, mmap_mode='r') assert isinstance(obj_loaded, type(obj)) assert isinstance(obj_loaded.array_float, np.memmap) assert not obj_loaded.array_float.flags.writeable assert isinstance(obj_loaded.array_int, np.memmap) assert not obj_loaded.array_int.flags.writeable # Memory map not allowed for numpy object arrays assert not isinstance(obj_loaded.array_obj, np.memmap) np.testing.assert_array_equal(obj_loaded.array_float, obj.array_float) np.testing.assert_array_equal(obj_loaded.array_int, obj.array_int) np.testing.assert_array_equal(obj_loaded.array_obj, obj.array_obj) # Test we can write in memmapped arrays obj_loaded = numpy_pickle.load(filename, mmap_mode='r+') assert obj_loaded.array_float.flags.writeable obj_loaded.array_float[0:10] = 10.0 assert obj_loaded.array_int.flags.writeable obj_loaded.array_int[0:10] = 10 obj_reloaded = numpy_pickle.load(filename, mmap_mode='r') np.testing.assert_array_equal(obj_reloaded.array_float, obj_loaded.array_float) np.testing.assert_array_equal(obj_reloaded.array_int, obj_loaded.array_int) # Test w+ mode is caught and the mode has switched to r+ numpy_pickle.load(filename, mmap_mode='w+') assert obj_loaded.array_int.flags.writeable assert obj_loaded.array_int.mode == 'r+' assert obj_loaded.array_float.flags.writeable assert obj_loaded.array_float.mode == 'r+' @with_numpy def test_memmap_persistence_mixed_dtypes(tmpdir): # loading datastructures that have sub-arrays with dtype=object # should not prevent memmapping on fixed size dtype sub-arrays. rnd = np.random.RandomState(0) a = rnd.random_sample(10) b = np.array([1, 'b'], dtype=object) construct = (a, b) filename = tmpdir.join('test.pkl').strpath numpy_pickle.dump(construct, filename) a_clone, b_clone = numpy_pickle.load(filename, mmap_mode='r') # the floating point array has been memory mapped assert isinstance(a_clone, np.memmap) # the object-dtype array has been loaded in memory assert not isinstance(b_clone, np.memmap) @with_numpy def test_masked_array_persistence(tmpdir): # The special-case picker fails, because saving masked_array # not implemented, but it just delegates to the standard pickler. rnd = np.random.RandomState(0) a = rnd.random_sample(10) a = np.ma.masked_greater(a, 0.5) filename = tmpdir.join('test.pkl').strpath numpy_pickle.dump(a, filename) b = numpy_pickle.load(filename, mmap_mode='r') assert isinstance(b, np.ma.masked_array) @with_numpy def test_compress_mmap_mode_warning(tmpdir): # Test the warning in case of compress + mmap_mode rnd = np.random.RandomState(0) a = rnd.random_sample(10) this_filename = tmpdir.join('test.pkl').strpath numpy_pickle.dump(a, this_filename, compress=1) with warns(UserWarning) as warninfo: numpy_pickle.load(this_filename, mmap_mode='r+') assert len(warninfo) == 1 assert (str(warninfo[0].message) == 'mmap_mode "%(mmap_mode)s" is not compatible with compressed ' 'file %(filename)s. "%(mmap_mode)s" flag will be ignored.' % {'filename': this_filename, 'mmap_mode': 'r+'}) @with_numpy @parametrize('cache_size', [None, 0, 10]) def test_cache_size_warning(tmpdir, cache_size): # Check deprecation warning raised when cache size is not None filename = tmpdir.join('test.pkl').strpath rnd = np.random.RandomState(0) a = rnd.random_sample((10, 2)) warnings.simplefilter("always") with warns(None) as warninfo: numpy_pickle.dump(a, filename, cache_size=cache_size) expected_nb_warnings = 1 if cache_size is not None else 0 assert len(warninfo) == expected_nb_warnings for w in warninfo: assert w.category == DeprecationWarning assert (str(w.message) == "Please do not set 'cache_size' in joblib.dump, this " "parameter has no effect and will be removed. You " "used 'cache_size={0}'".format(cache_size)) @with_numpy @with_memory_profiler @parametrize('compress', [True, False]) def test_memory_usage(tmpdir, compress): # Verify memory stays within expected bounds. filename = tmpdir.join('test.pkl').strpath small_array = np.ones((10, 10)) big_array = np.ones(shape=100 * int(1e6), dtype=np.uint8) small_matrix = np.matrix(small_array) big_matrix = np.matrix(big_array) for obj in (small_array, big_array, small_matrix, big_matrix): size = obj.nbytes / 1e6 obj_filename = filename + str(np.random.randint(0, 1000)) mem_used = memory_used(numpy_pickle.dump, obj, obj_filename, compress=compress) # The memory used to dump the object shouldn't exceed the buffer # size used to write array chunks (16MB). write_buf_size = _IO_BUFFER_SIZE + 16 * 1024 ** 2 / 1e6 assert mem_used <= write_buf_size mem_used = memory_used(numpy_pickle.load, obj_filename) # memory used should be less than array size + buffer size used to # read the array chunk by chunk. read_buf_size = 32 + _IO_BUFFER_SIZE # MiB assert mem_used < size + read_buf_size @with_numpy def test_compressed_pickle_dump_and_load(tmpdir): expected_list = [np.arange(5, dtype=np.dtype('i8')), np.arange(5, dtype=np.dtype('f8')), np.array([1, 'abc', {'a': 1, 'b': 2}], dtype='O'), # .tostring actually returns bytes and is a # compatibility alias for .tobytes which was # added in 1.9.0 np.arange(256, dtype=np.uint8).tostring(), # np.matrix is a subclass of np.ndarray, here we want # to verify this type of object is correctly unpickled # among versions. np.matrix([0, 1, 2], dtype=np.dtype('i8')), u"C'est l'\xe9t\xe9 !"] fname = tmpdir.join('temp.pkl.gz').strpath dumped_filenames = numpy_pickle.dump(expected_list, fname, compress=1) assert len(dumped_filenames) == 1 result_list = numpy_pickle.load(fname) for result, expected in zip(result_list, expected_list): if isinstance(expected, np.ndarray): assert result.dtype == expected.dtype np.testing.assert_equal(result, expected) else: assert result == expected def _check_pickle(filename, expected_list): """Helper function to test joblib pickle content. Note: currently only pickles containing an iterable are supported by this function. """ if not PY3_OR_LATER: if filename.endswith('.xz') or filename.endswith('.lzma'): # lzma is not implemented in python versions < 3.3 with raises(NotImplementedError): numpy_pickle.load(filename) elif filename.endswith('.lz4'): # lz4 is not supported for python versions < 3.3 with raises(ValueError) as excinfo: numpy_pickle.load(filename) assert excinfo.match("lz4 compression is only available with " "python3+") return version_match = re.match(r'.+py(\d)(\d).+', filename) py_version_used_for_writing = int(version_match.group(1)) py_version_used_for_reading = sys.version_info[0] py_version_to_default_pickle_protocol = {2: 2, 3: 3} pickle_reading_protocol = py_version_to_default_pickle_protocol.get( py_version_used_for_reading, 4) pickle_writing_protocol = py_version_to_default_pickle_protocol.get( py_version_used_for_writing, 4) if pickle_reading_protocol >= pickle_writing_protocol: try: with warns(None) as warninfo: warnings.simplefilter('always') warnings.filterwarnings( 'ignore', module='numpy', message='The compiler package is deprecated') result_list = numpy_pickle.load(filename) filename_base = os.path.basename(filename) expected_nb_warnings = 1 if ("_0.9" in filename_base or "_0.8.4" in filename_base) else 0 assert len(warninfo) == expected_nb_warnings for w in warninfo: assert w.category == DeprecationWarning assert (str(w.message) == "The file '{0}' has been generated with a joblib " "version less than 0.10. Please regenerate this " "pickle file.".format(filename)) for result, expected in zip(result_list, expected_list): if isinstance(expected, np.ndarray): assert result.dtype == expected.dtype np.testing.assert_equal(result, expected) else: assert result == expected except Exception as exc: # When trying to read with python 3 a pickle generated # with python 2 we expect a user-friendly error if (py_version_used_for_reading == 3 and py_version_used_for_writing == 2): assert isinstance(exc, ValueError) message = ('You may be trying to read with ' 'python 3 a joblib pickle generated with python 2.') assert message in str(exc) elif filename.endswith('.lz4') and with_lz4.args[0]: assert isinstance(exc, ValueError) assert LZ4_NOT_INSTALLED_ERROR in str(exc) else: raise else: # Pickle protocol used for writing is too high. We expect a # "unsupported pickle protocol" error message try: numpy_pickle.load(filename) raise AssertionError('Numpy pickle loading should ' 'have raised a ValueError exception') except ValueError as e: message = 'unsupported pickle protocol: {0}'.format( pickle_writing_protocol) assert message in str(e.args) @with_numpy def test_joblib_pickle_across_python_versions(): # We need to be specific about dtypes in particular endianness # because the pickles can be generated on one architecture and # the tests run on another one. See # https://github.com/joblib/joblib/issues/279. expected_list = [np.arange(5, dtype=np.dtype('= 3.3 msg = "{} compression is only available".format(cmethod) error = NotImplementedError if cmethod == 'lz4': error = ValueError with raises(error) as excinfo: numpy_pickle.dump(obj, dump_filename, compress=(cmethod, compress)) excinfo.match(msg) elif cmethod == 'lz4' and with_lz4.args[0]: # Skip the test if lz4 is not installed. We here use the with_lz4 # skipif fixture whose argument is True when lz4 is not installed raise SkipTest("lz4 is not installed.") else: numpy_pickle.dump(obj, dump_filename, compress=(cmethod, compress)) # Verify the file contains the right magic number with open(dump_filename, 'rb') as f: assert _detect_compressor(f) == cmethod # Verify the reloaded object is correct obj_reloaded = numpy_pickle.load(dump_filename) assert isinstance(obj_reloaded, type(obj)) if isinstance(obj, np.ndarray): np.testing.assert_array_equal(obj_reloaded, obj) else: assert obj_reloaded == obj def _gzip_file_decompress(source_filename, target_filename): """Decompress a gzip file.""" with closing(gzip.GzipFile(source_filename, "rb")) as fo: buf = fo.read() with open(target_filename, "wb") as fo: fo.write(buf) def _zlib_file_decompress(source_filename, target_filename): """Decompress a zlib file.""" with open(source_filename, 'rb') as fo: buf = zlib.decompress(fo.read()) with open(target_filename, 'wb') as fo: fo.write(buf) @parametrize('extension,decompress', [('.z', _zlib_file_decompress), ('.gz', _gzip_file_decompress)]) def test_load_externally_decompressed_files(tmpdir, extension, decompress): # Test that BinaryZlibFile generates valid gzip and zlib compressed files. obj = "a string to persist" filename_raw = tmpdir.join('test.pkl').strpath filename_compressed = filename_raw + extension # Use automatic extension detection to compress with the right method. numpy_pickle.dump(obj, filename_compressed) # Decompress with the corresponding method decompress(filename_compressed, filename_raw) # Test that the uncompressed pickle can be loaded and # that the result is correct. obj_reloaded = numpy_pickle.load(filename_raw) assert obj == obj_reloaded @parametrize('extension,cmethod', # valid compressor extensions [('.z', 'zlib'), ('.gz', 'gzip'), ('.bz2', 'bz2'), ('.lzma', 'lzma'), ('.xz', 'xz'), # invalid compressor extensions ('.pkl', 'not-compressed'), ('', 'not-compressed')]) def test_compression_using_file_extension(tmpdir, extension, cmethod): # test that compression method corresponds to the given filename extension. filename = tmpdir.join('test.pkl').strpath obj = "object to dump" dump_fname = filename + extension if not PY3_OR_LATER and cmethod in ('xz', 'lzma'): # Lzma module only available for python >= 3.3 msg = "{} compression is only available".format(cmethod) with raises(NotImplementedError) as excinfo: numpy_pickle.dump(obj, dump_fname) excinfo.match(msg) else: numpy_pickle.dump(obj, dump_fname) # Verify the file contains the right magic number with open(dump_fname, 'rb') as f: assert _detect_compressor(f) == cmethod # Verify the reloaded object is correct obj_reloaded = numpy_pickle.load(dump_fname) assert isinstance(obj_reloaded, type(obj)) assert obj_reloaded == obj @with_numpy def test_file_handle_persistence(tmpdir): objs = [np.random.random((10, 10)), "some data", np.matrix([0, 1, 2])] fobjs = [bz2.BZ2File, gzip.GzipFile] if PY3_OR_LATER: import lzma fobjs += [lzma.LZMAFile] filename = tmpdir.join('test.pkl').strpath for obj in objs: for fobj in fobjs: with fobj(filename, 'wb') as f: numpy_pickle.dump(obj, f) # using the same decompressor prevents from internally # decompress again. with fobj(filename, 'rb') as f: obj_reloaded = numpy_pickle.load(f) # when needed, the correct decompressor should be used when # passing a raw file handle. with open(filename, 'rb') as f: obj_reloaded_2 = numpy_pickle.load(f) if isinstance(obj, np.ndarray): np.testing.assert_array_equal(obj_reloaded, obj) np.testing.assert_array_equal(obj_reloaded_2, obj) else: assert obj_reloaded == obj assert obj_reloaded_2 == obj @with_numpy def test_in_memory_persistence(): objs = [np.random.random((10, 10)), "some data", np.matrix([0, 1, 2])] for obj in objs: f = io.BytesIO() numpy_pickle.dump(obj, f) obj_reloaded = numpy_pickle.load(f) if isinstance(obj, np.ndarray): np.testing.assert_array_equal(obj_reloaded, obj) else: assert obj_reloaded == obj @with_numpy def test_file_handle_persistence_mmap(tmpdir): obj = np.random.random((10, 10)) filename = tmpdir.join('test.pkl').strpath with open(filename, 'wb') as f: numpy_pickle.dump(obj, f) with open(filename, 'rb') as f: obj_reloaded = numpy_pickle.load(f, mmap_mode='r+') np.testing.assert_array_equal(obj_reloaded, obj) @with_numpy def test_file_handle_persistence_compressed_mmap(tmpdir): obj = np.random.random((10, 10)) filename = tmpdir.join('test.pkl').strpath with open(filename, 'wb') as f: numpy_pickle.dump(obj, f, compress=('gzip', 3)) with closing(gzip.GzipFile(filename, 'rb')) as f: with warns(UserWarning) as warninfo: numpy_pickle.load(f, mmap_mode='r+') assert len(warninfo) == 1 assert (str(warninfo[0].message) == '"%(fileobj)r" is not a raw file, mmap_mode "%(mmap_mode)s" ' 'flag will be ignored.' % {'fileobj': f, 'mmap_mode': 'r+'}) @with_numpy def test_file_handle_persistence_in_memory_mmap(): obj = np.random.random((10, 10)) buf = io.BytesIO() numpy_pickle.dump(obj, buf) with warns(UserWarning) as warninfo: numpy_pickle.load(buf, mmap_mode='r+') assert len(warninfo) == 1 assert (str(warninfo[0].message) == 'In memory persistence is not compatible with mmap_mode ' '"%(mmap_mode)s" flag passed. mmap_mode option will be ' 'ignored.' % {'mmap_mode': 'r+'}) @parametrize('data', [b'a little data as bytes.', # More bytes 10000 * "{}".format( random.randint(0, 1000) * 1000).encode('latin-1')], ids=["a little data as bytes.", "a large data as bytes."]) @parametrize('compress_level', [1, 3, 9]) def test_binary_zlibfile(tmpdir, data, compress_level): filename = tmpdir.join('test.pkl').strpath # Regular cases with open(filename, 'wb') as f: with BinaryZlibFile(f, 'wb', compresslevel=compress_level) as fz: assert fz.writable() fz.write(data) assert fz.fileno() == f.fileno() with raises(io.UnsupportedOperation): fz._check_can_read() with raises(io.UnsupportedOperation): fz._check_can_seek() assert fz.closed with raises(ValueError): fz._check_not_closed() with open(filename, 'rb') as f: with BinaryZlibFile(f) as fz: assert fz.readable() if PY3_OR_LATER: assert fz.seekable() assert fz.fileno() == f.fileno() assert fz.read() == data with raises(io.UnsupportedOperation): fz._check_can_write() if PY3_OR_LATER: # io.BufferedIOBase doesn't have seekable() method in # python 2 assert fz.seekable() fz.seek(0) assert fz.tell() == 0 assert fz.closed # Test with a filename as input with BinaryZlibFile(filename, 'wb', compresslevel=compress_level) as fz: assert fz.writable() fz.write(data) with BinaryZlibFile(filename, 'rb') as fz: assert fz.read() == data assert fz.seekable() # Test without context manager fz = BinaryZlibFile(filename, 'wb', compresslevel=compress_level) assert fz.writable() fz.write(data) fz.close() fz = BinaryZlibFile(filename, 'rb') assert fz.read() == data fz.close() @parametrize('bad_value', [-1, 10, 15, 'a', (), {}]) def test_binary_zlibfile_bad_compression_levels(tmpdir, bad_value): filename = tmpdir.join('test.pkl').strpath with raises(ValueError) as excinfo: BinaryZlibFile(filename, 'wb', compresslevel=bad_value) pattern = re.escape("'compresslevel' must be an integer between 1 and 9. " "You provided 'compresslevel={}'".format(bad_value)) excinfo.match(pattern) @parametrize('bad_mode', ['a', 'x', 'r', 'w', 1, 2]) def test_binary_zlibfile_invalid_modes(tmpdir, bad_mode): filename = tmpdir.join('test.pkl').strpath with raises(ValueError) as excinfo: BinaryZlibFile(filename, bad_mode) excinfo.match("Invalid mode") @parametrize('bad_file', [1, (), {}]) def test_binary_zlibfile_invalid_filename_type(bad_file): with raises(TypeError) as excinfo: BinaryZlibFile(bad_file, 'rb') excinfo.match("filename must be a str or bytes object, or a file") ############################################################################### # Test dumping array subclasses if np is not None: class SubArray(np.ndarray): def __reduce__(self): return _load_sub_array, (np.asarray(self), ) def _load_sub_array(arr): d = SubArray(arr.shape) d[:] = arr return d class ComplexTestObject: """A complex object containing numpy arrays as attributes.""" def __init__(self): self.array_float = np.arange(100, dtype='float64') self.array_int = np.ones(100, dtype='int32') self.array_obj = np.array(['a', 10, 20.0], dtype='object') @with_numpy def test_numpy_subclass(tmpdir): filename = tmpdir.join('test.pkl').strpath a = SubArray((10,)) numpy_pickle.dump(a, filename) c = numpy_pickle.load(filename) assert isinstance(c, SubArray) np.testing.assert_array_equal(c, a) def test_pathlib(tmpdir): try: from pathlib import Path except ImportError: pass else: filename = tmpdir.join('test.pkl').strpath value = 123 numpy_pickle.dump(value, Path(filename)) assert numpy_pickle.load(filename) == value numpy_pickle.dump(value, filename) assert numpy_pickle.load(Path(filename)) == value @with_numpy def test_non_contiguous_array_pickling(tmpdir): filename = tmpdir.join('test.pkl').strpath for array in [ # Array that triggers a contiguousness issue with nditer, # see https://github.com/joblib/joblib/pull/352 and see # https://github.com/joblib/joblib/pull/353 np.asfortranarray([[1, 2], [3, 4]])[1:], # Non contiguous array with works fine with nditer np.ones((10, 50, 20), order='F')[:, :1, :]]: assert not array.flags.c_contiguous assert not array.flags.f_contiguous numpy_pickle.dump(array, filename) array_reloaded = numpy_pickle.load(filename) np.testing.assert_array_equal(array_reloaded, array) @with_numpy def test_pickle_highest_protocol(tmpdir): # ensure persistence of a numpy array is valid even when using # the pickle HIGHEST_PROTOCOL. # see https://github.com/joblib/joblib/issues/362 filename = tmpdir.join('test.pkl').strpath test_array = np.zeros(10) numpy_pickle.dump(test_array, filename, protocol=pickle.HIGHEST_PROTOCOL) array_reloaded = numpy_pickle.load(filename) np.testing.assert_array_equal(array_reloaded, test_array) @with_numpy def test_pickle_in_socket(): # test that joblib can pickle in sockets if not PY3_OR_LATER: raise SkipTest("Cannot peek or seek in socket in python 2.") test_array = np.arange(10) _ADDR = ("localhost", 12345) listener = socket.socket(socket.AF_INET, socket.SOCK_STREAM) listener.bind(_ADDR) listener.listen(1) client = socket.create_connection(_ADDR) server, client_addr = listener.accept() with server.makefile("wb") as sf: numpy_pickle.dump(test_array, sf) with client.makefile("rb") as cf: array_reloaded = numpy_pickle.load(cf) np.testing.assert_array_equal(array_reloaded, test_array) @with_numpy def test_load_memmap_with_big_offset(tmpdir): # Test that numpy memmap offset is set correctly if greater than # mmap.ALLOCATIONGRANULARITY, see # https://github.com/joblib/joblib/issues/451 and # https://github.com/numpy/numpy/pull/8443 for more details. fname = tmpdir.join('test.mmap').strpath size = mmap.ALLOCATIONGRANULARITY obj = [np.zeros(size, dtype='uint8'), np.ones(size, dtype='uint8')] numpy_pickle.dump(obj, fname) memmaps = numpy_pickle.load(fname, mmap_mode='r') assert isinstance(memmaps[1], np.memmap) assert memmaps[1].offset > size np.testing.assert_array_equal(obj, memmaps) def test_register_compressor(tmpdir): # Check that registering compressor file works. compressor_name = 'test-name' compressor_prefix = 'test-prefix' class BinaryCompressorTestFile(io.BufferedIOBase): pass class BinaryCompressorTestWrapper(CompressorWrapper): def __init__(self): CompressorWrapper.__init__(self, obj=BinaryCompressorTestFile, prefix=compressor_prefix) register_compressor(compressor_name, BinaryCompressorTestWrapper()) assert (_COMPRESSORS[compressor_name].fileobj_factory == BinaryCompressorTestFile) assert _COMPRESSORS[compressor_name].prefix == compressor_prefix # Remove this dummy compressor file from extra compressors because other # tests might fail because of this _COMPRESSORS.pop(compressor_name) @parametrize('invalid_name', [1, (), {}]) def test_register_compressor_invalid_name(invalid_name): # Test that registering an invalid compressor name is not allowed. with raises(ValueError) as excinfo: register_compressor(invalid_name, None) excinfo.match("Compressor name should be a string") def test_register_compressor_invalid_fileobj(): # Test that registering an invalid file object is not allowed. class InvalidFileObject(): pass class InvalidFileObjectWrapper(CompressorWrapper): def __init__(self): CompressorWrapper.__init__(self, obj=InvalidFileObject, prefix=b'prefix') with raises(ValueError) as excinfo: register_compressor('invalid', InvalidFileObjectWrapper()) excinfo.match("Compressor 'fileobj_factory' attribute should implement " "the file object interface") class AnotherZlibCompressorWrapper(CompressorWrapper): def __init__(self): CompressorWrapper.__init__(self, obj=BinaryZlibFile, prefix=b'prefix') class StandardLibGzipCompressorWrapper(CompressorWrapper): def __init__(self): CompressorWrapper.__init__(self, obj=gzip.GzipFile, prefix=b'prefix') def test_register_compressor_already_registered(): # Test registration of existing compressor files. compressor_name = 'test-name' # register a test compressor register_compressor(compressor_name, AnotherZlibCompressorWrapper()) with raises(ValueError) as excinfo: register_compressor(compressor_name, StandardLibGzipCompressorWrapper()) excinfo.match("Compressor '{}' already registered." .format(compressor_name)) register_compressor(compressor_name, StandardLibGzipCompressorWrapper(), force=True) assert compressor_name in _COMPRESSORS assert _COMPRESSORS[compressor_name].fileobj_factory == gzip.GzipFile # Remove this dummy compressor file from extra compressors because other # tests might fail because of this _COMPRESSORS.pop(compressor_name) @with_lz4 def test_lz4_compression(tmpdir): # Check that lz4 can be used when dependency is available. import lz4.frame compressor = 'lz4' assert compressor in _COMPRESSORS assert _COMPRESSORS[compressor].fileobj_factory == lz4.frame.LZ4FrameFile fname = tmpdir.join('test.pkl').strpath data = 'test data' numpy_pickle.dump(data, fname, compress=compressor) with open(fname, 'rb') as f: assert f.read(len(_LZ4_PREFIX)) == _LZ4_PREFIX assert numpy_pickle.load(fname) == data # Test that LZ4 is applied based on file extension numpy_pickle.dump(data, fname + '.lz4') with open(fname, 'rb') as f: assert f.read(len(_LZ4_PREFIX)) == _LZ4_PREFIX assert numpy_pickle.load(fname) == data @without_lz4 def test_lz4_compression_without_lz4(tmpdir): # Check that lz4 cannot be used when dependency is not available. fname = tmpdir.join('test.nolz4').strpath data = 'test data' msg = LZ4_NOT_INSTALLED_ERROR if not PY3_OR_LATER: msg = "lz4 compression is only available with python3+" with raises(ValueError) as excinfo: numpy_pickle.dump(data, fname, compress='lz4') excinfo.match(msg) with raises(ValueError) as excinfo: numpy_pickle.dump(data, fname + '.lz4') excinfo.match(msg)