abrahamnunes / fitr

Tools for computational psychiatry research.
https://computationalpsychiatry.github.io/fitr
GNU General Public License v3.0
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Pin joblib to latest version 1.4.0 #450

Open pyup-bot opened 7 months ago

pyup-bot commented 7 months ago

This PR pins joblib to the latest release 1.4.0.

Changelog ### 1.4.0 ``` --------------------------- - Allow caching co-routines with `Memory.cache`. https://github.com/joblib/joblib/pull/894 - Try to cast ``n_jobs`` to int in parallel and raise an error if it fails. This means that ``n_jobs=2.3`` will now result in ``effective_n_jobs=2`` instead of failing. https://github.com/joblib/joblib/pull/1539 - Ensure that errors in the task generator given to Parallel's call are raised in the results consumming thread. https://github.com/joblib/joblib/pull/1491 - Adjust codebase to NumPy 2.0 by changing ``np.NaN`` to ``np.nan`` and importing ``byte_bounds`` from ``np.lib.array_utils``. https://github.com/joblib/joblib/pull/1501 - The parameter ``return_as`` in ``joblib.Parallel`` can now be set to ``generator_unordered``. In this case the results will be returned in the order of task completion rather than the order of submission. https://github.com/joblib/joblib/pull/1463 - dask backend now supports ``return_as=generator`` and ``return_as=generator_unordered``. https://github.com/joblib/joblib/pull/1520 - Vendor cloudpickle 3.0.0 and end support for Python 3.7 which has reached end of life. https://github.com/joblib/joblib/pull/1487 https://github.com/joblib/joblib/pull/1515 ``` ### 1.3.2 ``` --------------------------- - Fix a regression in ``joblib.Parallel`` introduced in 1.3.0 where explicitly setting ``n_jobs=None`` was not interpreted as "unset". https://github.com/joblib/joblib/pull/1475 - Fix a regression in ``joblib.Parallel`` introduced in 1.3.0 where ``joblib.Parallel`` logging methods exposed from inheritance to ``joblib.Logger`` didn't work because of missing logger initialization. https://github.com/joblib/joblib/pull/1494 - Various maintenance updates to the doc, the ci and the test. https://github.com/joblib/joblib/pull/1480, https://github.com/joblib/joblib/pull/1481, https://github.com/joblib/joblib/pull/1476, https://github.com/joblib/joblib/pull/1492 ``` ### 1.3.1 ``` --------------------------- - Fix compatibility with python 3.7 by vendor loky 3.4.1 which is compatible with this version. https://github.com/joblib/joblib/pull/1472 ``` ### 1.3.0 ``` --------------------------- - Ensure native byte order for memmap arrays in ``joblib.load``. https://github.com/joblib/joblib/issues/1353 - Add ability to change default Parallel backend in tests by setting the ``JOBLIB_TESTS_DEFAULT_PARALLEL_BACKEND`` environment variable. https://github.com/joblib/joblib/pull/1356 - Fix temporary folder creation in `joblib.Parallel` on Linux subsystems on Windows which do have `/dev/shm` but don't have the `os.statvfs` function https://github.com/joblib/joblib/issues/1353 - Drop runtime dependency on ``distutils``. ``distutils`` is going away in Python 3.12 and is deprecated from Python 3.10 onwards. This import was kept around to avoid breaking scikit-learn, however it's now been long enough since scikit-learn deployed a fixed (verion 1.1 was released in May 2022) that it should be safe to remove this. https://github.com/joblib/joblib/pull/1361 - A warning is raised when a pickling error occurs during caching operations. In version 1.5, this warning will be turned into an error. For all other errors, a new warning has been introduced: ``joblib.memory.CacheWarning``. https://github.com/joblib/joblib/pull/1359 - Avoid (module, name) collisions when caching nested functions. This fix changes the module name of nested functions, invalidating caches from previous versions of Joblib. https://github.com/joblib/joblib/pull/1374 - Add ``cache_validation_callback`` in :meth:`joblib.Memory.cache`, to allow custom cache invalidation based on the metadata of the function call. https://github.com/joblib/joblib/pull/1149 - Add a ``return_as`` parameter for ``Parallel``, that enables consuming results asynchronously. https://github.com/joblib/joblib/pull/1393, https://github.com/joblib/joblib/pull/1458 - Improve the behavior of ``joblib`` for ``n_jobs=1``, with simplified tracebacks and more efficient running time. https://github.com/joblib/joblib/pull/1393 - Add the ``parallel_config`` context manager to allow for more fine-grained control over the backend configuration. It should be used in place of the ``parallel_backend`` context manager. In particular, it has the advantage of not requiring to set a specific backend in the context manager. https://github.com/joblib/joblib/pull/1392, https://github.com/joblib/joblib/pull/1457 - Add ``items_limit`` and ``age_limit`` in :meth:`joblib.Memory.reduce_size` to make it easy to limit the number of items and remove items that have not been accessed for a long time in the cache. https://github.com/joblib/joblib/pull/1200 - Deprecate ``bytes_limit`` in ``Memory`` as this is not automatically enforced, the limit can be directly passed to :meth:`joblib.Memory.reduce_size` which needs to be called to actually enforce the limit. https://github.com/joblib/joblib/pull/1447 - Vendor ``loky`` 3.4.0 which includes various fixes. https://github.com/joblib/joblib/pull/1422 - Various updates to the documentation and to benchmarking tools. https://github.com/joblib/joblib/pull/1343, https://github.com/joblib/joblib/pull/1348, https://github.com/joblib/joblib/pull/1411, https://github.com/joblib/joblib/pull/1451, https://github.com/joblib/joblib/pull/1427, https://github.com/joblib/joblib/pull/1400 - Move project metadata to ``pyproject.toml``. https://github.com/joblib/joblib/pull/1382, https://github.com/joblib/joblib/pull/1433 - Add more tests to improve python ``nogil`` support. https://github.com/joblib/joblib/pull/1394, https://github.com/joblib/joblib/pull/1395 ``` ### 1.2.0 ``` ------------- - Fix a security issue where ``eval(pre_dispatch)`` could potentially run arbitrary code. Now only basic numerics are supported. https://github.com/joblib/joblib/pull/1327 - Make sure that joblib works even when multiprocessing is not available, for instance with Pyodide https://github.com/joblib/joblib/pull/1256 - Avoid unnecessary warnings when workers and main process delete the temporary memmap folder contents concurrently. https://github.com/joblib/joblib/pull/1263 - Fix memory alignment bug for pickles containing numpy arrays. This is especially important when loading the pickle with ``mmap_mode != None`` as the resulting ``numpy.memmap`` object would not be able to correct the misalignment without performing a memory copy. This bug would cause invalid computation and segmentation faults with native code that would directly access the underlying data buffer of a numpy array, for instance C/C++/Cython code compiled with older GCC versions or some old OpenBLAS written in platform specific assembly. https://github.com/joblib/joblib/pull/1254 - Vendor cloudpickle 2.2.0 which adds support for PyPy 3.8+. - Vendor loky 3.3.0 which fixes several bugs including: - robustly forcibly terminating worker processes in case of a crash (https://github.com/joblib/joblib/pull/1269); - avoiding leaking worker processes in case of nested loky parallel calls; - reliability spawn the correct number of reusable workers. ``` ### 1.1.1 ``` ------------- - Fix a security issue where ``eval(pre_dispatch)`` could potentially run arbitrary code. Now only basic numerics are supported. https://github.com/joblib/joblib/pull/1327 ``` ### 1.1.0 ``` -------------- - Fix byte order inconsistency issue during deserialization using joblib.load in cross-endian environment: the numpy arrays are now always loaded to use the system byte order, independently of the byte order of the system that serialized the pickle. https://github.com/joblib/joblib/pull/1181 - Fix joblib.Memory bug with the ``ignore`` parameter when the cached function is a decorated function. https://github.com/joblib/joblib/pull/1165 - Fix `joblib.Memory` to properly handle caching for functions defined interactively in a IPython session or in Jupyter notebook cell. https://github.com/joblib/joblib/pull/1214 - Update vendored loky (from version 2.9 to 3.0) and cloudpickle (from version 1.6 to 2.0) https://github.com/joblib/joblib/pull/1218 ``` ### 1.0.1 ``` ------------- - Add check_call_in_cache method to check cache without calling function. https://github.com/joblib/joblib/pull/820 - dask: avoid redundant scattering of large arguments to make a more efficient use of the network resources and avoid crashing dask with "OSError: [Errno 55] No buffer space available" or "ConnectionResetError: [Errno 104] connection reset by peer". https://github.com/joblib/joblib/pull/1133 ``` ### 1.0.0 ``` ------------- - Make `joblib.hash` and `joblib.Memory` caching system compatible with `numpy >= 1.20.0`. Also make it explicit in the documentation that users should now expect to have their `joblib.Memory` cache invalidated when either `joblib` or a third party library involved in the cached values definition is upgraded. In particular, users updating `joblib` to a release that includes this fix will see their previous cache invalidated if they contained reference to `numpy` objects. https://github.com/joblib/joblib/pull/1136 - Remove deprecated `check_pickle` argument in `delayed`. https://github.com/joblib/joblib/pull/903 ``` ### 0.17.0 ``` -------------- - Fix a spurious invalidation of `Memory.cache`'d functions called with `Parallel` under Jupyter or IPython. https://github.com/joblib/joblib/pull/1093 - Bump vendored loky to 2.9.0 and cloudpickle to 1.6.0. In particular this fixes a problem to add compat for Python 3.9. ``` ### 0.16.0 ``` -------------- - Fix a problem in the constructors of Parallel backends classes that inherit from the `AutoBatchingMixin` that prevented the dask backend to properly batch short tasks. https://github.com/joblib/joblib/pull/1062 - Fix a problem in the way the joblib dask backend batches calls that would badly interact with the dask callable pickling cache and lead to wrong results or errors. https://github.com/joblib/joblib/pull/1055 - Prevent a dask.distributed bug from surfacing in joblib's dask backend during nested Parallel calls (due to joblib's auto-scattering feature) https://github.com/joblib/joblib/pull/1061 - Workaround for a race condition after Parallel calls with the dask backend that would cause low level warnings from asyncio coroutines: https://github.com/joblib/joblib/pull/1078 ``` ### 0.15.1 ``` -------------- - Make joblib work on Python 3 installation that do not ship with the lzma package in their standard library. ``` ### 0.15.0 ``` -------------- - Drop support for Python 2 and Python 3.5. All objects in ``joblib.my_exceptions`` and ``joblib.format_stack`` are now deprecated and will be removed in joblib 0.16. Note that no deprecation warning will be raised for these objects Python < 3.7. https://github.com/joblib/joblib/pull/1018 - Fix many bugs related to the temporary files and folder generated when automatically memory mapping large numpy arrays for efficient inter-process communication. In particular, this would cause `PermissionError` exceptions to be raised under Windows and large leaked files in `/dev/shm` under Linux in case of crash. https://github.com/joblib/joblib/pull/966 - Make the dask backend collect results as soon as they complete leading to a performance improvement: https://github.com/joblib/joblib/pull/1025 - Fix the number of jobs reported by ``effective_n_jobs`` when ``n_jobs=None`` called in a parallel backend context. https://github.com/joblib/joblib/pull/985 - Upgraded vendored cloupickle to 1.4.1 and loky to 2.8.0. This allows for Parallel calls of dynamically defined functions with type annotations in particular. ``` ### 0.14.1 ``` -------------- - Configure the loky workers' environment to mitigate oversubsription with nested multi-threaded code in the following case: - allow for a suitable number of threads for numba (``NUMBA_NUM_THREADS``); - enable Interprocess Communication for scheduler coordination when the nested code uses Threading Building Blocks (TBB) (``ENABLE_IPC=1``) https://github.com/joblib/joblib/pull/951 - Fix a regression where the loky backend was not reusing previously spawned workers. https://github.com/joblib/joblib/pull/968 - Revert https://github.com/joblib/joblib/pull/847 to avoid using `pkg_resources` that introduced a performance regression under Windows: https://github.com/joblib/joblib/issues/965 ``` ### 0.14.0 ``` -------------- - Improved the load balancing between workers to avoid stranglers caused by an excessively large batch size when the task duration is varying significantly (because of the combined use of ``joblib.Parallel`` and ``joblib.Memory`` with a partially warmed cache for instance). https://github.com/joblib/joblib/pull/899 - Add official support for Python 3.8: fixed protocol number in `Hasher` and updated tests. - Fix a deadlock when using the dask backend (when scattering large numpy arrays). https://github.com/joblib/joblib/pull/914 - Warn users that they should never use `joblib.load` with files from untrusted sources. Fix security related API change introduced in numpy 1.6.3 that would prevent using joblib with recent numpy versions. https://github.com/joblib/joblib/pull/879 - Upgrade to cloudpickle 1.1.1 that add supports for the upcoming Python 3.8 release among other things. https://github.com/joblib/joblib/pull/878 - Fix semaphore availability checker to avoid spawning resource trackers on module import. https://github.com/joblib/joblib/pull/893 - Fix the oversubscription protection to only protect against nested `Parallel` calls. This allows `joblib` to be run in background threads. https://github.com/joblib/joblib/pull/934 - Fix `ValueError` (negative dimensions) when pickling large numpy arrays on Windows. https://github.com/joblib/joblib/pull/920 - Upgrade to loky 2.6.0 that add supports for the setting environment variables in child before loading any module. https://github.com/joblib/joblib/pull/940 - Fix the oversubscription protection for native libraries using threadpools (OpenBLAS, MKL, Blis and OpenMP runtimes). The maximal number of threads is can now be set in children using the ``inner_max_num_threads`` in ``parallel_backend``. It defaults to ``cpu_count() // n_jobs``. https://github.com/joblib/joblib/pull/940 ``` ### 0.13.2 ``` -------------- Pierre Glaser Upgrade to cloudpickle 0.8.0 Add a non-regression test related to joblib issues 836 and 833, reporting that cloudpickle versions between 0.5.4 and 0.7 introduced a bug where global variables changes in a parent process between two calls to joblib.Parallel would not be propagated into the workers ``` ### 0.13.1 ``` -------------- Pierre Glaser Memory now accepts pathlib.Path objects as ``location`` parameter. Also, a warning is raised if the returned backend is None while ``location`` is not None. Olivier Grisel Make ``Parallel`` raise an informative ``RuntimeError`` when the active parallel backend has zero worker. Make the ``DaskDistributedBackend`` wait for workers before trying to schedule work. This is useful in particular when the workers are provisionned dynamically but provisionning is not immediate (for instance using Kubernetes, Yarn or an HPC job queue). ``` ### 0.13.0 ``` -------------- Thomas Moreau Include loky 2.4.2 with default serialization with ``cloudpickle``. This can be tweaked with the environment variable ``LOKY_PICKLER``. Thomas Moreau Fix nested backend in SequentialBackend to avoid changing the default backend to Sequential. (792) Thomas Moreau, Olivier Grisel Fix nested_backend behavior to avoid setting the default number of workers to -1 when the backend is not dask. (784) ``` ### 0.12.5 ``` -------------- Thomas Moreau, Olivier Grisel Include loky 2.3.1 with better error reporting when a worker is abruptly terminated. Also fixes spurious debug output. Pierre Glaser Include cloudpickle 0.5.6. Fix a bug with the handling of global variables by locally defined functions. ``` ### 0.12.4 ``` -------------- Thomas Moreau, Pierre Glaser, Olivier Grisel Include loky 2.3.0 with many bugfixes, notably w.r.t. when setting non-default multiprocessing contexts. Also include improvement on memory management of long running worker processes and fixed issues when using the loky backend under PyPy. Maxime Weyl Raises a more explicit exception when a corrupted MemorizedResult is loaded. Maxime Weyl Loading a corrupted cached file with mmap mode enabled would recompute the results and return them without memory mapping. ``` ### 0.12.3 ``` -------------- Thomas Moreau Fix joblib import setting the global start_method for multiprocessing. Alexandre Abadie Fix MemorizedResult not picklable (747). Loïc Estève Fix Memory, MemorizedFunc and MemorizedResult round-trip pickling + unpickling (746). James Collins Fixed a regression in Memory when positional arguments are called as kwargs several times with different values (751). Thomas Moreau and Olivier Grisel Integration of loky 2.2.2 that fixes issues with the selection of the default start method and improve the reporting when calling functions with arguments that raise an exception when unpickling. Maxime Weyl Prevent MemorizedFunc.call_and_shelve from loading cached results to RAM when not necessary. Results in big performance improvements ``` ### 0.12.2 ``` -------------- Olivier Grisel Integrate loky 2.2.0 to fix regression with unpicklable arguments and functions reported by users (723, 643). Loky 2.2.0 also provides a protection against memory leaks long running applications when psutil is installed (reported as 721). Joblib now includes the code for the dask backend which has been updated to properly handle nested parallelism and data scattering at the same time (722). Alexandre Abadie and Olivier Grisel Restored some private API attribute and arguments (`MemorizedResult.argument_hash` and `BatchedCalls.__init__`'s `pickle_cache`) for backward compat. (716, 732). Joris Van den Bossche Fix a deprecation warning message (for `Memory`'s `cachedir`) (720). ``` ### 0.12.1 ``` -------------- Thomas Moreau Make sure that any exception triggered when serializing jobs in the queue will be wrapped as a PicklingError as in past versions of joblib. Noam Hershtig Fix kwonlydefaults key error in filter_args (715) ``` ### 0.12 ``` ------------ Thomas Moreau Implement the ``'loky'`` backend with ogrisel. This backend relies on a robust implementation of ``concurrent.futures.ProcessPoolExecutor`` with spawned processes that can be reused across the ``Parallel`` calls. This fixes the bad integration with third paty libraries relying on thread pools, described in https://pythonhosted.org/joblib/parallel.html#bad-interaction-of-multiprocessing-and-third-party-libraries Limit the number of threads used in worker processes by C-libraries that relies on threadpools. This functionality works for MKL, OpenBLAS, OpenMP and Accelerated. Elizabeth Sander Prevent numpy arrays with the same shape and data from hashing to the same memmap, to prevent jobs with preallocated arrays from writing over each other. Olivier Grisel Reduce overhead of automatic memmap by removing the need to hash the array. Make ``Memory.cache`` robust to ``PermissionError (errno 13)`` under Windows when run in combination with ``Parallel``. The automatic array memory mapping feature of ``Parallel`` does no longer use ``/dev/shm`` if it is too small (less than 2 GB). In particular in docker containers ``/dev/shm`` is only 64 MB by default which would cause frequent failures when running joblib in Docker containers. Make it possible to hint for thread-based parallelism with ``prefer='threads'`` or enforce shared-memory semantics with ``require='sharedmem'``. Rely on the built-in exception nesting system of Python 3 to preserve traceback information when an exception is raised on a remote worker process. This avoid verbose and redundant exception reports under Python 3. Preserve exception type information when doing nested Parallel calls instead of mapping the exception to the generic ``JoblibException`` type. Alexandre Abadie Introduce the concept of 'store' and refactor the ``Memory`` internal storage implementation to make it accept extra store backends for caching results. ``backend`` and ``backend_options`` are the new options added to ``Memory`` to specify and configure a store backend. Add the ``register_store_backend`` function to extend the store backend used by default with Memory. This default store backend is named 'local' and corresponds to the local filesystem. The store backend API is experimental and thus is subject to change in the future without deprecation. The ``cachedir`` parameter of ``Memory`` is now marked as deprecated, use ``location`` instead. Add support for LZ4 compression if ``lz4`` package is installed. Add ``register_compressor`` function for extending available compressors. Allow passing a string to ``compress`` parameter in ``dump`` function. This string should correspond to the compressor used (e.g. zlib, gzip, lz4, etc). The default compression level is used in this case. Matthew Rocklin Allow ``parallel_backend`` to be used globally instead of only as a context manager. Support lazy registration of external parallel backends ``` ### 0.11 ``` ------------ Alexandre Abadie Remove support for python 2.6 Alexandre Abadie Remove deprecated `format_signature`, `format_call` and `load_output` functions from Memory API. Loïc Estève Add initial implementation of LRU cache cleaning. You can specify the size limit of a ``Memory`` object via the ``bytes_limit`` parameter and then need to clean explicitly the cache via the ``Memory.reduce_size`` method. Olivier Grisel Make the multiprocessing backend work even when the name of the main thread is not the Python default. Thanks to Roman Yurchak for the suggestion. Karan Desai pytest is used to run the tests instead of nosetests. ``python setup.py test`` or ``python setup.py nosetests`` do not work anymore, run ``pytest joblib`` instead. Loïc Estève An instance of ``joblib.ParallelBackendBase`` can be passed into the ``parallel`` argument in ``joblib.Parallel``. Loïc Estève Fix handling of memmap objects with offsets greater than mmap.ALLOCATIONGRANULARITY in ``joblib.Parallel``. See https://github.com/joblib/joblib/issues/451 for more details. Loïc Estève Fix performance regression in ``joblib.Parallel`` with n_jobs=1. See https://github.com/joblib/joblib/issues/483 for more details. Loïc Estève Fix race condition when a function cached with ``joblib.Memory.cache`` was used inside a ``joblib.Parallel``. See https://github.com/joblib/joblib/issues/490 for more details. ``` ### 0.10.3 ``` -------------- Loïc Estève Fix tests when multiprocessing is disabled via the JOBLIB_MULTIPROCESSING environment variable. harishmk Remove warnings in nested Parallel objects when the inner Parallel has n_jobs=1. See https://github.com/joblib/joblib/pull/406 for more details. ``` ### 0.10.2 ``` -------------- Loïc Estève FIX a bug in stack formatting when the error happens in a compiled extension. See https://github.com/joblib/joblib/pull/382 for more details. Vincent Latrouite FIX a bug in the constructor of BinaryZlibFile that would throw an exception when passing unicode filename (Python 2 only). See https://github.com/joblib/joblib/pull/384 for more details. Olivier Grisel Expose :class:`joblib.parallel.ParallelBackendBase` and :class:`joblib.parallel.AutoBatchingMixin` in the public API to make them officially re-usable by backend implementers. ``` ### 0.10.0 ``` -------------- Alexandre Abadie ENH: joblib.dump/load now accept file-like objects besides filenames. https://github.com/joblib/joblib/pull/351 for more details. Niels Zeilemaker and Olivier Grisel Refactored joblib.Parallel to enable the registration of custom computational backends. https://github.com/joblib/joblib/pull/306 Note the API to register custom backends is considered experimental and subject to change without deprecation. Alexandre Abadie Joblib pickle format change: joblib.dump always create a single pickle file and joblib.dump/joblib.save never do any memory copy when writing/reading pickle files. Reading pickle files generated with joblib versions prior to 0.10 will be supported for a limited amount of time, we advise to regenerate them from scratch when convenient. joblib.dump and joblib.load also support pickle files compressed using various strategies: zlib, gzip, bz2, lzma and xz. Note that lzma and xz are only available with python >= 3.3. https://github.com/joblib/joblib/pull/260 for more details. Antony Lee ENH: joblib.dump/load now accept pathlib.Path objects as filenames. https://github.com/joblib/joblib/pull/316 for more details. Olivier Grisel Workaround for "WindowsError: [Error 5] Access is denied" when trying to terminate a multiprocessing pool under Windows: https://github.com/joblib/joblib/issues/354 ``` ### 0.9.4 ``` ------------- Olivier Grisel FIX a race condition that could cause a joblib.Parallel to hang when collecting the result of a job that triggers an exception. https://github.com/joblib/joblib/pull/296 Olivier Grisel FIX a bug that caused joblib.Parallel to wrongly reuse previously memmapped arrays instead of creating new temporary files. https://github.com/joblib/joblib/pull/294 for more details. Loïc Estève FIX for raising non inheritable exceptions in a Parallel call. See https://github.com/joblib/joblib/issues/269 for more details. Alexandre Abadie FIX joblib.hash error with mixed types sets and dicts containing mixed types keys when using Python 3. see https://github.com/joblib/joblib/issues/254 Loïc Estève FIX joblib.dump/load for big numpy arrays with dtype=object. See https://github.com/joblib/joblib/issues/220 for more details. Loïc Estève FIX joblib.Parallel hanging when used with an exhausted iterator. See https://github.com/joblib/joblib/issues/292 for more details. ``` ### 0.9.3 ``` ------------- Olivier Grisel Revert back to the ``fork`` start method (instead of ``forkserver``) as the latter was found to cause crashes in interactive Python sessions. ``` ### 0.9.2 ``` ------------- Loïc Estève Joblib hashing now uses the default pickle protocol (2 for Python 2 and 3 for Python 3). This makes it very unlikely to get the same hash for a given object under Python 2 and Python 3. In particular, for Python 3 users, this means that the output of joblib.hash changes when switching from joblib 0.8.4 to 0.9.2 . We strive to ensure that the output of joblib.hash does not change needlessly in future versions of joblib but this is not officially guaranteed. Loïc Estève Joblib pickles generated with Python 2 can not be loaded with Python 3 and the same applies for joblib pickles generated with Python 3 and loaded with Python 2. During the beta period 0.9.0b2 to 0.9.0b4, we experimented with a joblib serialization that aimed to make pickles serialized with Python 3 loadable under Python 2. Unfortunately this serialization strategy proved to be too fragile as far as the long-term maintenance was concerned (For example see https://github.com/joblib/joblib/pull/243). That means that joblib pickles generated with joblib 0.9.0bN can not be loaded under joblib 0.9.2. Joblib beta testers, who are the only ones likely to be affected by this, are advised to delete their joblib cache when they upgrade from 0.9.0bN to 0.9.2. Arthur Mensch Fixed a bug with ``joblib.hash`` that used to return unstable values for strings and numpy.dtype instances depending on interning states. Olivier Grisel Make joblib use the 'forkserver' start method by default under Python 3.4+ to avoid causing crash with 3rd party libraries (such as Apple vecLib / Accelerate or the GCC OpenMP runtime) that use an internal thread pool that is not reinitialized when a ``fork`` system call happens. Olivier Grisel New context manager based API (``with`` block) to re-use the same pool of workers across consecutive parallel calls. Vlad Niculae and Olivier Grisel Automated batching of fast tasks into longer running jobs to hide multiprocessing dispatching overhead when possible. Olivier Grisel FIX make it possible to call ``joblib.load(filename, mmap_mode='r')`` on pickled objects that include a mix of arrays of both memory memmapable dtypes and object dtype. ``` ### 0.8.4 ``` ------------- 2014-11-20 Olivier Grisel OPTIM use the C-optimized pickler under Python 3 This makes it possible to efficiently process parallel jobs that deal with numerous Python objects such as large dictionaries. ``` ### 0.8.3 ``` ------------- 2014-08-19 Olivier Grisel FIX disable memmapping for object arrays 2014-08-07 Lars Buitinck MAINT NumPy 1.10-safe version comparisons 2014-07-11 Olivier Grisel FIX 146: Heisen test failure caused by thread-unsafe Python lists This fix uses a queue.Queue datastructure in the failing test. This datastructure is thread-safe thanks to an internal Lock. This Lock instance not picklable hence cause the picklability check of delayed to check fail. When using the threading backend, picklability is no longer required, hence this PRs give the user the ability to disable it on a case by case basis. ``` ### 0.8.2 ``` ------------- 2014-06-30 Olivier Grisel BUG: use mmap_mode='r' by default in Parallel and MemmappingPool The former default of mmap_mode='c' (copy-on-write) caused problematic use of the paging file under Windows. 2014-06-27 Olivier Grisel BUG: fix usage of the /dev/shm folder under Linux ``` ### 0.8.1 ``` ------------- 2014-05-29 Gael Varoquaux BUG: fix crash with high verbosity ``` ### 0.8.0 ``` ------------- 2014-05-14 Olivier Grisel Fix a bug in exception reporting under Python 3 2014-05-10 Olivier Grisel Fixed a potential segfault when passing non-contiguous memmap instances. 2014-04-22 Gael Varoquaux ENH: Make memory robust to modification of source files while the interpreter is running. Should lead to less spurious cache flushes and recomputations. 2014-02-24 Philippe Gervais New ``Memory.call_and_shelve`` API to handle memoized results by reference instead of by value. ``` ### 0.8.0a3 ``` --------------- 2014-01-10 Olivier Grisel & Gael Varoquaux FIX 105: Race condition in task iterable consumption when pre_dispatch != 'all' that could cause crash with error messages "Pools seems closed" and "ValueError: generator already executing". 2014-01-12 Olivier Grisel FIX 72: joblib cannot persist "output_dir" keyword argument. ``` ### 0.8.0a2 ``` --------------- 2013-12-23 Olivier Grisel ENH: set default value of Parallel's max_nbytes to 100MB Motivation: avoid introducing disk latency on medium sized parallel workload where memory usage is not an issue. FIX: properly handle the JOBLIB_MULTIPROCESSING env variable FIX: timeout test failures under windows ``` ### 0.8.0a ``` -------------- 2013-12-19 Olivier Grisel FIX: support the new Python 3.4 multiprocessing API 2013-12-05 Olivier Grisel ENH: make Memory respect mmap_mode at first call too ENH: add a threading based backend to Parallel This is low overhead alternative backend to the default multiprocessing backend that is suitable when calling compiled extensions that release the GIL. Author: Dan Stahlke <danstahlke.org> Date: 2013-11-08 FIX: use safe_repr to print arg vals in trace This fixes a problem in which extremely long (and slow) stack traces would be produced when function parameters are large numpy arrays. 2013-09-10 Olivier Grisel ENH: limit memory copy with Parallel by leveraging numpy.memmap when possible ``` ### 0.7.1 ``` --------------- 2013-07-25 Gael Varoquaux MISC: capture meaningless argument (n_jobs=0) in Parallel 2013-07-09 Lars Buitinck ENH Handles tuples, sets and Python 3's dict_keys type the same as lists. in pre_dispatch 2013-05-23 Martin Luessi ENH: fix function caching for IPython ``` ### 0.7.0 ``` --------------- **This release drops support for Python 2.5 in favor of support for Python 3.0** 2013-02-13 Gael Varoquaux BUG: fix nasty hash collisions 2012-11-19 Gael Varoquaux ENH: Parallel: Turn of pre-dispatch for already expanded lists Gael Varoquaux 2012-11-19 ENH: detect recursive sub-process spawning, as when people do not protect the __main__ in scripts under Windows, and raise a useful error. Gael Varoquaux 2012-11-16 ENH: Full python 3 support ``` ### 0.6.5 ``` --------------- 2012-09-15 Yannick Schwartz BUG: make sure that sets and dictionaries give reproducible hashes 2012-07-18 Marek Rudnicki BUG: make sure that object-dtype numpy array hash correctly 2012-07-12 GaelVaroquaux BUG: Bad default n_jobs for Parallel ``` ### 0.6.4 ``` --------------- 2012-05-07 Vlad Niculae ENH: controlled randomness in tests and doctest fix 2012-02-21 GaelVaroquaux ENH: add verbosity in memory 2012-02-21 GaelVaroquaux BUG: non-reproducible hashing: order of kwargs The ordering of a dictionary is random. As a result the function hashing was not reproducible. Pretty hard to test ``` ### 0.6.3 ``` --------------- 2012-02-14 GaelVaroquaux BUG: fix joblib Memory pickling 2012-02-11 GaelVaroquaux BUG: fix hasher with Python 3 2012-02-09 GaelVaroquaux API: filter_args: `*args, **kwargs -> args, kwargs` ``` ### 0.6.2 ``` --------------- 2012-02-06 Gael Varoquaux BUG: make sure Memory pickles even if cachedir=None ``` ### 0.6.1 ``` --------------- Bugfix release because of a merge error in release 0.6.0 ``` ### 0.6.0 ``` --------------- **Beta 3** 2012-01-11 Gael Varoquaux BUG: ensure compatibility with old numpy DOC: update installation instructions BUG: file semantic to work under Windows 2012-01-10 Yaroslav Halchenko BUG: a fix toward 2.5 compatibility **Beta 2** 2012-01-07 Gael Varoquaux ENH: hash: bugware to be able to hash objects defined interactively in IPython 2012-01-07 Gael Varoquaux ENH: Parallel: warn and not fail for nested loops ENH: Parallel: n_jobs=-2 now uses all CPUs but one 2012-01-01 Juan Manuel Caicedo Carvajal and Gael Varoquaux ENH: add verbosity levels in Parallel ``` ### 0.5.7 ``` --------------- 2011-12-28 Gael varoquaux API: zipped -> compress 2011-12-26 Gael varoquaux ENH: Add a zipped option to Memory API: Memory no longer accepts save_npy 2011-12-22 Kenneth C. Arnold and Gael varoquaux BUG: fix numpy_pickle for array subclasses 2011-12-21 Gael varoquaux ENH: add zip-based pickling 2011-12-19 Fabian Pedregosa Py3k: compatibility fixes. This makes run fine the tests test_disk and test_parallel ``` ### 0.5.6 ``` --------------- 2011-12-11 Lars Buitinck ENH: Replace os.path.exists before makedirs with exception check New disk.mkdirp will fail with other errnos than EEXIST. 2011-12-10 Bala Subrahmanyam Varanasi MISC: pep8 compliant ``` ### 0.5.5 ``` --------------- 2011-19-10 Fabian Pedregosa ENH: Make joblib installable under Python 3.X ``` ### 0.5.4 ``` --------------- 2011-09-29 Jon Olav Vik BUG: Make mangling path to filename work on Windows 2011-09-25 Olivier Grisel FIX: doctest heisenfailure on execution time 2011-08-24 Ralf Gommers STY: PEP8 cleanup. ``` ### 0.5.3 ``` --------------- 2011-06-25 Gael varoquaux API: All the useful symbols in the __init__ ``` ### 0.5.2 ``` --------------- 2011-06-25 Gael varoquaux ENH: Add cpu_count 2011-06-06 Gael varoquaux ENH: Make sure memory hash in a reproducible way ``` ### 0.5.1 ``` --------------- 2011-04-12 Gael varoquaux TEST: Better testing of parallel and pre_dispatch Yaroslav Halchenko 2011-04-12 DOC: quick pass over docs -- trailing spaces/spelling Yaroslav Halchenko 2011-04-11 ENH: JOBLIB_MULTIPROCESSING env var to disable multiprocessing from the environment Alexandre Gramfort 2011-04-08 ENH : adding log message to know how long it takes to load from disk the cache ``` ### 0.5.0 ``` --------------- 2011-04-01 Gael varoquaux BUG: pickling MemoizeFunc does not store timestamp 2011-03-31 Nicolas Pinto TEST: expose hashing bug with cached method 2011-03-26...2011-03-27 Pietro Berkes BUG: fix error management in rm_subdirs BUG: fix for race condition during tests in mem.clear() Gael varoquaux 2011-03-22...2011-03-26 TEST: Improve test coverage and robustness Gael varoquaux 2011-03-19 BUG: hashing functions with only \*var \**kwargs Gael varoquaux 2011-02-01... 2011-03-22 BUG: Many fixes to capture interprocess race condition when mem.cache is used by several processes on the same cache. Fabian Pedregosa 2011-02-28 First work on Py3K compatibility Gael varoquaux 2011-02-27 ENH: pre_dispatch in parallel: lazy generation of jobs in parallel for to avoid drowning memory. GaelVaroquaux 2011-02-24 ENH: Add the option of overloading the arguments of the mother 'Memory' object in the cache method that is doing the decoration. Gael varoquaux 2010-11-21 ENH: Add a verbosity level for more verbosity ``` ### 0.4.6 ``` ---------------- Gael varoquaux 2010-11-15 ENH: Deal with interruption in parallel Gael varoquaux 2010-11-13 BUG: Exceptions raised by Parallel when n_job=1 are no longer captured. Gael varoquaux 2010-11-13 BUG: Capture wrong arguments properly (better error message) ``` ### 0.4.5 ``` ---------------- Pietro Berkes 2010-09-04 BUG: Fix Windows peculiarities with path separators and file names BUG: Fix more windows locking bugs Gael varoquaux 2010-09-03 ENH: Make sure that exceptions raised in Parallel also inherit from the original exception class ENH: Add a shadow set of exceptions Fabian Pedregosa 2010-09-01 ENH: Clean up the code for parallel. Thanks to Fabian Pedregosa for the patch. ``` ### 0.4.4 ``` ---------------- Gael varoquaux 2010-08-23 BUG: Fix Parallel on computers with only one CPU, for n_jobs=-1. Gael varoquaux 2010-08-02 BUG: Fix setup.py for extra setuptools args. Gael varoquaux 2010-07-29 MISC: Silence tests (and hopefully Yaroslav :P) ``` ### 0.4.3 ``` ---------------- Gael Varoquaux 2010-07-22 BUG: Fix hashing for function with a side effect modifying their input argument. Thanks to Pietro Berkes for reporting the bug and proving the patch. ``` ### 0.4.2 ``` ---------------- Gael Varoquaux 2010-07-16 BUG: Make sure that joblib still works with Python2.5. => release 0.4.2 ``` ### 0.4.1 ``` ---------------- ```
Links - PyPI: https://pypi.org/project/joblib - Changelog: https://data.safetycli.com/changelogs/joblib/