Mailman 3 December 2021 - NumPy-Discussion

NumPy 1.22.0rc3 released
by Charles R Harris 18 Dec '21

18 Dec '21

Hi All, On behalf of the NumPy team, I'm pleased to announce the release of NumPy 1.22.0rc3. NumPy 1.22.0rc3 is a big release featuring the work of 152 contributors spread over 602 pull requests. There have been many improvements, highlights are: - Annotations of the main namespace are essentially complete. Upstream is a moving target, so there will likely be further improvements, but the major work is done. This is probably the most user visible enhancement in this release. - A preliminary version of the proposed Array-API is provided. This is a step in creating a standard collection of functions that can be used across applications such as CuPy and JAX. - NumPy now has a DLPack backend. DLPack provides a common interchange format for array (tensor) data. - New methods for `quantile`, `percentile`, and related functions. Thenew methods provide a complete set of the methods commonly found in the literature. - A new configurable allocator for use by downstream projects. These are in addition to the ongoing work to provide SIMD support for commonly used functions, improvements to F2PY, and better documentation. The Python versions supported in this release are 3.8-3.10, Python 3.7 has been dropped. Note that 32 bit wheels are only provided for Python 3.8 and 3.9 on Windows, all other wheels are 64 bits on account of Ubuntu, Fedora, and other Linux distributions dropping 32 bit support. All 64 bit wheels are also linked with 64 bit integer OpenBLAS, which should fix the occasional problems encountered by folks using truly huge arrays. Wheels can be downloaded from PyPI <https://pypi.org/project/numpy/1.22.0rc3/>; source archives, release notes, and wheel hashes are available on Github <https://github.com/numpy/numpy/releases/tag/v1.22.0rc3>. Linux users will need pip >= 0.19.3 in order to install the manylinux2014 wheels. A recent version of pip is needed to install the universal2 macos wheels. *Contributors* A total of 151 people contributed to this release. People with a "+" by their names contributed a patch for the first time. - @DWesl - @Illviljan - @h-vetinari - @yan-wyb + - Aaron Meurer - Abel Aoun + - Adrian Gao + - Ahmet Can Solak + - Ajay DS + - Alban Colley + - Alberto Rubiales + - Alessia Marcolini + - Amit Kumar + - Andrei Batomunkuev + - Andrew Watson + - Anirudh Dagar + - Ankit Dwivedi + - Antony Lee - Arfy Slowy + - Arryan Singh + - Arun Palaniappen + - Arushi Sharma + - Bas van Beek - Brent Brewington + - Carl Johnsen + - Carl Michal + - Charles Harris - Chiara Marmo - Chris Fu (傅立业) + - Christoph Buchner + - Christoph Reiter + - Chunlin Fang - Clément Robert + - Constanza Fierro - Damien Caliste - Daniel Ching - David Badnar + - David Cortes + - David Okpare + - Derek Huang + - Developer-Ecosystem-Engineering + - Dima Pasechnik - Dimitri Papadopoulos + - Dmitriy Fishman + - Eero Vaher + - Elias Koromilas + - Eliaz Bobadilla + - Elisha Hollander + - Eric Wieser - Eskild Eriksen + - Evan Miller + - Fayas Noushad + - Gagandeep Singh + - Ganesh Kathiresan - Ghiles Meddour + - Greg Lucas - Gregory R. Lee - Guo Shuai + - Gwyn Ciesla + - Hameer Abbasi - Hector Martin + - Henry Schreiner + - Himanshu + - Hood Chatham + - Hugo Defois + - Hugo van Kemenade - I-Shen Leong + - Imen Rajhi + - Irina Maria Mocan + - Irit Katriel + - Isuru Fernando - Jakob Jakobson - Jerry Morrison + - Jessi J Zhao + - Joe Marshall + - Johan von Forstner + - Jonas I. Liechti + - Jonathan Reichelt Gjertsen + - Joshua Himmens + - Jérome Eertmans - Jérôme Kieffer + - KIU Shueng Chuan + - Kazuki Sakamoto + - Kenichi Maehashi - Kenny Huynh + - Kent R. Spillner + - Kevin Granados + - Kevin Modzelewski + - Kevin Sheppard - Lalit Musmade + - Malik Idrees Hasan Khan + - Marco Aurelio da Costa + - Margret Pax + - Mars Lee + - Marten van Kerkwijk - Matthew Barber + - Matthew Brett - Matthias Bussonnier - Matthieu Dartiailh - Matti Picus - Melissa Weber Mendonça - Michael McCann + - Mike Jarvis + - Mike McCann + - Mike Toews - Mukulika Pahari - Nick Pope + - Nick Wogan + - Niels Dunnewind + - Niko Savola + - Nikola Forró - Niyas Sait + - Pamphile ROY - Paul Ganssle + - Pauli Virtanen - Pearu Peterson - Peter Hawkins + - Peter Tillema + - Prathmesh Shirsat + - Raghuveer Devulapalli - Ralf Gommers - Robert Kern - Rohit Goswami + - Ronan Lamy - Ross Barnowski - Roy Jacobson + - Samyak S Sarnayak + - Sayantika Banik + - Sayed Adel - Sebastian Berg - Sebastian Schleehauf + - Serge Guelton - Shriraj Hegde + - Shubham Gupta + - Sista Seetaram + - Stefan van der Walt - Stephannie Jimenez Gacha + - Tania Allard - Theodoros Nikolaou + - Thomas J. Fan - Thomas Li + - Tim Hoffmann - Tom Tan + - Tyler Reddy - Vijay Arora + - Vinith Kishore + - Warren Weckesser - Yang Hau - Yashasvi Misra - Yuval Ofek + - Zac Hatfield-Dodds - Zhang Na + Cheers, Charles Harris

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NumPy Development Meeting Wednesday - Triage Focus
by Sebastian Berg 14 Dec '21

14 Dec '21

Hi all, Our bi-weekly triage-focused NumPy development meeting is Wednesday, December 15th at 17:30 UTC (9:30am Pacific Time). Everyone is invited to join in and edit the work-in-progress meeting topics and notes: https://hackmd.io/68i_JvOYQfy9ERiHgXMPvg I encourage everyone to notify us of issues or PRs that you feel should be prioritized, discussed, or reviewed. Best regards Sebastian PS: Note that there was a time-zone confusion, we kept the time in the calendar, which is one hour later than what the email said two weeks ago.

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computation of transcendentals
by jeremiah.johnson＠unh.edu 12 Dec '21

12 Dec '21

Hello, Can someone tell me (or point me to the relevant source code) what algorithms NumPy uses to compute transcendentals, such as exp, log, etc? Thanks, Jeremiah

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ANN: SciPy 1.8.0rc1 -- please test
by Tyler Reddy 11 Dec '21

11 Dec '21

Hi all, On behalf of the SciPy development team I'm pleased to announce the release candidate SciPy 1.8.0rc1. Please help us test this pre-release. Sources and binary wheels can be found at: https://pypi.org/project/scipy/ and at: https://github.com/scipy/scipy/releases/tag/v1.8.0rc1 One of a few ways to install the release candidate with pip: pip install scipy==1.8.0rc1 Current known issues with rc1: https://github.com/MacPython/scipy-wheels/issues/155 ==================== SciPy 1.8.0 Release Notes ==================== Note: SciPy 1.8.0 is not released yet! SciPy 1.8.0 is the culmination of 6 months of hard work. It contains many new features, numerous bug-fixes, improved test coverage and better documentation. There have been a number of deprecations and API changes in this release, which are documented below. All users are encouraged to upgrade to this release, as there are a large number of bug-fixes and optimizations. Before upgrading, we recommend that users check that their own code does not use deprecated SciPy functionality (to do so, run your code with ``python -Wd`` and check for ``DeprecationWarning`` s). Our development attention will now shift to bug-fix releases on the 1.8.x branch, and on adding new features on the master branch. This release requires Python 3.8+ and NumPy 1.17.3 or greater. For running on PyPy, PyPy3 6.0+ is required. **************************** Highlights of this release **************************** - A sparse array API has been added for early testing and feedback; this work is ongoing, and users should expect minor API refinements over the next few releases. - The sparse SVD library PROPACK is now vendored with SciPy, and an interface is exposed via `scipy.sparse.svds` with ``solver='PROPACK'``. - A new `scipy.stats.sampling` submodule that leverages the ``UNU.RAN`` C library to sample from arbitrary univariate non-uniform continuous and discrete distributions - All namespaces that were private but happened to miss underscores in their names have been deprecated. *************** New features *************** `scipy.fft` improvements ================== Added an ``orthogonalize=None`` parameter to the real transforms in `scipy.fft` which controls whether the modified definition of DCT/DST is used without changing the overall scaling. `scipy.fft` backend registration is now smoother, operating with a single registration call and no longer requiring a context manager. `scipy.integrate` improvements ======================= `scipy.integrate.quad_vec` introduces a new optional keyword-only argument, ``args``. ``args`` takes in a tuple of extra arguments if any (default is ``args=()``), which is then internally used to pass into the callable function (needing these extra arguments) which we wish to integrate. `scipy.interpolate` improvements ========================= `scipy.interpolate.BSpline` has a new method, ``design_matrix``, which constructs a design matrix of b-splines in the sparse CSR format. A new method ``from_cubic`` in ``BSpline`` class allows to convert a ``CubicSpline`` object to ``BSpline`` object. `scipy.linalg` improvements ===================== `scipy.linalg` gained three new public array structure investigation functions. `scipy.linalg.bandwidth` returns information about the bandedness of an array and can be used to test for triangular structure discovery, while `scipy.linalg.issymmetric` and `scipy.linalg.ishermitian` test the array for exact and approximate symmetric/Hermitian structure. `scipy.optimize` improvements ======================= `scipy.optimize.check_grad` introduces two new optional keyword only arguments, ``direction`` and ``seed``. ``direction`` can take values, ``'all'`` (default), in which case all the one hot direction vectors will be used for verifying the input analytical gradient function and ``'random'``, in which case a random direction vector will be used for the same purpose. ``seed`` (default is ``None``) can be used for reproducing the return value of ``check_grad`` function. It will be used only when ``direction='random'``. The `scipy.optimize.minimize` ``TNC`` method has been rewritten to use Cython bindings. This also fixes an issue with the callback altering the state of the optimization. Added optional parameters ``target_accept_rate`` and ``stepwise_factor`` for adapative step size adjustment in ``basinhopping``. The ``epsilon`` argument to ``approx_fprime`` is now optional so that it may have a default value consistent with most other functions in `scipy.optimize`. `scipy.signal` improvements ===================== Add ``analog`` argument, default ``False``, to ``zpk2sos``, and add new pairing option ``'minimal'`` to construct analog and minimal discrete SOS arrays. ``tf2sos`` uses zpk2sos; add ``analog`` argument here as well, and pass it on to ``zpk2sos``. ``savgol_coeffs`` and ``savgol_filter`` now work for even window lengths. Added the Chirp Z-transform and Zoom FFT available as `scipy.signal.CZT` and `scipy.signal.ZoomFFT`. `scipy.sparse` improvements ====================== An array API has been added for early testing and feedback; this work is ongoing, and users should expect minor API refinements over the next few releases. Please refer to the `scipy.sparse` docstring for more information. ``maximum_flow`` introduces optional keyword only argument, ``method`` which accepts either, ``'edmonds-karp'`` (Edmonds Karp algorithm) or ``'dinic'`` (Dinic's algorithm). Moreover, ``'dinic'`` is used as default value for ``method`` which means that Dinic's algorithm is used for computing maximum flow unless specified. See, the comparison between the supported algorithms in `this comment <https://github.com/scipy/scipy/pull/14358#issue-684212523>`_. Parameters ``atol``, ``btol`` now default to 1e-6 in `scipy.sparse.linalg.lsmr` to match with default values in `scipy.sparse.linalg.lsqr`. Add the Transpose-Free Quasi-Minimal Residual algorithm (TFQMR) for general nonsingular non-Hermitian linear systems in `scipy.sparse.linalg.tfqmr`. The sparse SVD library PROPACK is now vendored with SciPy, and an interface is exposed via `scipy.sparse.svds` with ``solver='PROPACK'``. For some problems, this may be faster and/or more accurate than the default, ARPACK. ``sparse.linalg`` iterative solvers now have a nonzero initial guess option, which may be specified as ``x0 = 'Mb'``. The ``trace`` method has been added for sparse matrices. `scipy.spatial` improvements ====================== `scipy.spatial.transform.Rotation` now supports item assignment and has a new ``concatenate`` method. Add `scipy.spatial.distance.kulczynski1` in favour of `scipy.spatial.distance.kulsinski` which will be deprecated in the next release. `scipy.spatial.distance.minkowski` now also supports ``0<p<1``. `scipy.special` improvements ====================== The new function `scipy.special.log_expit` computes the logarithm of the logistic sigmoid function. The function is formulated to provide accurate results for large positive and negative inputs, so it avoids the problems that would occur in the naive implementation ``log(expit(x))``. A suite of five new functions for elliptic integrals: ``scipy.special.ellipr{c,d,f,g,j}``. These are the `Carlson symmetric elliptic integrals <https://dlmf.nist.gov/19.16>`_, which have computational advantages over the classical Legendre integrals. Previous versions included some elliptic integrals from the Cephes library (``scipy.special.ellip{k,km1,kinc,e,einc}``) but was missing the integral of third kind (Legendre's Pi), which can be evaluated using the new Carlson functions. The new Carlson elliptic integral functions can be evaluated in the complex plane, whereas the Cephes library's functions are only defined for real inputs. Several defects in `scipy.special.hyp2f1` have been corrected. Approximately correct values are now returned for ``z`` near ``exp(+-i*pi/3)``, fixing `#8054 <https://github.com/scipy/scipy/issues/8054>`_. Evaluation for such ``z`` is now calculated through a series derived by `López and Temme (2013) <https://arxiv.org/abs/1306.2046>`_ that converges in these regions. In addition, degenerate cases with one or more of ``a``, ``b``, and/or ``c`` a non-positive integer are now handled in a manner consistent with `mpmath's hyp2f1 implementation < https://mpmath.org/doc/current/functions/hypergeometric.html>`_, which fixes `#7340 <https://github.com/scipy/scipy/issues/7340>`_. These fixes were made as part of an effort to rewrite the Fortran 77 implementation of hyp2f1 in Cython piece by piece. This rewriting is now roughly 50% complete. `scipy.stats` improvements ===================== `scipy.stats.qmc.LatinHypercube` introduces two new optional keyword-only arguments, ``optimization`` and ``strength``. ``optimization`` is either ``None`` or ``random-cd``. In the latter, random permutations are performed to improve the centered discrepancy. ``strength`` is either 1 or 2. 1 corresponds to the classical LHS while 2 has better sub-projection properties. This construction is referred to as an orthogonal array based LHS of strength 2. In both cases, the output is still a LHS. `scipy.stats.qmc.Halton` is faster as the underlying Van der Corput sequence was ported to Cython. The ``alternative`` parameter was added to the ``kendalltau`` and ``somersd`` functions to allow one-sided hypothesis testing. Similarly, the masked versions of ``skewtest``, ``kurtosistest``, ``ttest_1samp``, ``ttest_ind``, and ``ttest_rel`` now also have an ``alternative`` parameter. Add `scipy.stats.gzscore` to calculate the geometrical z score. Random variate generators to sample from arbitrary univariate non-uniform continuous and discrete distributions have been added to the new `scipy.stats.sampling` submodule. Implementations of a C library `UNU.RAN <http://statmath.wu.ac.at/software/unuran/>`_ are used for performance. The generators added are: - TransformedDensityRejection - DiscreteAliasUrn - NumericalInversePolynomial - DiscreteGuideTable - SimpleRatioUniforms The ``binned_statistic`` set of functions now have improved performance for the ``std``, ``min``, ``max``, and ``median`` statistic calculations. ``somersd`` and ``_tau_b`` now have faster Pythran-based implementations. Some general efficiency improvements to handling of ``nan`` values in several ``stats`` functions. Added the Tukey-Kramer test as `scipy.stats.tukey_hsd`. Improved performance of `scipy.stats.argus` ``rvs`` method. Added the parameter ``keepdims`` to `scipy.stats.variation` and prevent the undesirable return of a masked array from the function in some cases. ``permutation_test`` performs an exact or randomized permutation test of a given statistic on provided data. *********************** Deprecated features *********************** Clear split between public and private API ================================ SciPy has always documented what its public API consisted of in :ref:`its API reference docs <scipy-api>`, however there never was a clear split between public and private namespaces in the code base. In this release, all namespaces that were private but happened to miss underscores in their names have been deprecated. These include (as examples, there are many more): - ``scipy.signal.spline`` - ``scipy.ndimage.filters`` - ``scipy.ndimage.fourier`` - ``scipy.ndimage.measurements`` - ``scipy.ndimage.morphology`` - ``scipy.ndimage.interpolation`` - ``scipy.sparse.linalg.solve`` - ``scipy.sparse.linalg.eigen`` - ``scipy.sparse.linalg.isolve`` All functions and other objects in these namespaces that were meant to be public are accessible from their respective public namespace (e.g. `scipy.signal`). The design principle is that any public object must be accessible from a single namespace only; there are a few exceptions, mostly for historical reasons (e.g., ``stats`` and ``stats.distributions`` overlap). For other libraries aiming to provide a SciPy-compatible API, it is now unambiguous what namespace structure to follow. See `gh-14360 <https://github.com/scipy/scipy/issues/14360>`_ for more details. Other deprecations =============== ``NumericalInverseHermite`` has been deprecated from `scipy.stats` and moved to the `scipy.stats.sampling` submodule. It now uses the C implementation of the UNU.RAN library so the result of methods like ``ppf`` may vary slightly. Parameter ``tol`` has been deprecated and renamed to ``u_resolution``. The parameter ``max_intervals`` has also been deprecated and will be removed in a future release of SciPy. ************************************** Backwards incompatible changes ************************************** - SciPy has raised the minimum compiler versions to GCC 6.3 on linux and VS2019 on windows. In particular, this means that SciPy may now use C99 and C++14 features. For more details see `here <https://docs.scipy.org/doc/scipy/reference/dev/toolchain.html>`_. - The result for empty bins for `scipy.stats.binned_statistic` with the builtin ``'std'`` metric is now ``nan``, for consistency with ``np.std``. - The function `scipy.spatial.distance.wminkowski` has been removed. To achieve the same results as before, please use the ``minkowski`` distance function with the (optional) ``w=`` keyword-argument for the given weight. ***************** Other changes ***************** Some Fortran 77 code was modernized to be compatible with NAG's nagfor Fortran compiler (see, e.g., `PR 13229 <https://github.com/scipy/scipy/pull/13229 >`_). ``threadpoolctl`` may now be used by our test suite to substantially improve the efficiency of parallel test suite runs. ********** Authors ********** * @endolith * adamadanandy + * akeemlh + * Anton Akhmerov * Marvin Albert + * alegresor + * Andrew Annex + * Pantelis Antonoudiou + * Ross Barnowski + * Christoph Baumgarten * Stephen Becker + * Nickolai Belakovski * Peter Bell * berberto + * Georgii Bocharov + * Evgeni Burovski * Matthias Bussonnier * CJ Carey * Justin Charlong + * Dennis Collaris + * David Cottrell + * cruyffturn + * da-woods + * Anirudh Dagar * Tiger Du + * Thomas Duvernay * Dani El-Ayyass + * Castedo Ellerman + * Donnie Erb + * Andreas Esders-Kopecky + * Livio F + * Isuru Fernando * Evelyn Fitzgerald + * Sara Fridovich-Keil + * Mark E Fuller + * Ralf Gommers * Kevin Richard Green + * guiweber + * Nitish Gupta + * h-vetinari * Matt Haberland * J. Hariharan + * Charles Harris * Trever Hines * Ian Hunt-Isaak + * ich + * Itrimel + * Jan-Hendrik Müller + * Jebby993 + * Evan W Jones + * Nathaniel Jones + * Jeffrey Kelling + * Malik Idrees Hasan Khan + * Sergey B Kirpichev * Kadatatlu Kishore + * Andrew Knyazev * Ravin Kumar + * Peter Mahler Larsen * Eric Larson * Antony Lee * Gregory R. Lee * Tim Leslie * lezcano + * Xingyu Liu * Christian Lorentzen * Lorenzo + * Smit Lunagariya + * Lv101Magikarp + * Yair M + * Cong Ma * Lorenzo Maffioli + * majiang + * Brian McFee + * Nicholas McKibben * John Speed Meyers + * millivolt9 + * Jarrod Millman * Harsh Mishra + * Boaz Mohar + * naelsondouglas + * Andrew Nelson * Nico Schlömer * Thomas Nowotny + * nullptr + * Teddy Ort + * Nick Papior * ParticularMiner + * Dima Pasechnik * Tirth Patel * Matti Picus * Ilhan Polat * Adrian Price-Whelan + * Quentin Barthélemy + * Sundar R + * Judah Rand + * Tyler Reddy * Renal-Of-Loon + * Frederic Renner + * Pamphile Roy * Bharath Saiguhan + * Atsushi Sakai * Eric Schanet + * Sebastian Wallkötter * serge-sans-paille * Reshama Shaikh + * Namami Shanker * Walter Simson + * Gagandeep Singh + * Leo C. Stein + * Albert Steppi * Kai Striega * Diana Sukhoverkhova * Søren Fuglede Jørgensen * Mike Taves * Ben Thompson + * Bas van Beek * Jacob Vanderplas * Dhruv Vats + * H. Vetinari + * Thomas Viehmann + * Pauli Virtanen * Vlad + * Arthur Volant * Samuel Wallan * Stefan van der Walt * Warren Weckesser * Josh Wilson * Haoyin Xu + * Rory Yorke * Egor Zemlyanoy * Gang Zhao + * 赵丰 (Zhao Feng) + A total of 132 people contributed to this release. People with a "+" by their names contributed a patch for the first time. This list of names is automatically generated, and may not be fully complete. ************************** Issues closed for 1.8.0 ************************** * `#592 <https://github.com/scipy/scipy/issues/592>`__: Statistics Review: variation (Trac #65) * `#857 <https://github.com/scipy/scipy/issues/857>`__: A Wrapper for PROPACK (Trac #330) * `#2009 <https://github.com/scipy/scipy/issues/2009>`__: "Kulsinski" dissimilarity seems wrong (Trac #1484) * `#2063 <https://github.com/scipy/scipy/issues/2063>`__: callback functions for COBYLA and TNC (Trac #1538) * `#2358 <https://github.com/scipy/scipy/issues/2358>`__: ndimage.center_of_mass doesnt return all for all labelled objects... * `#5668 <https://github.com/scipy/scipy/issues/5668>`__: Need zpk2sos for analog filters * `#7340 <https://github.com/scipy/scipy/issues/7340>`__: SciPy Hypergeometric function hyp2f1 producing infinities * `#8774 <https://github.com/scipy/scipy/issues/8774>`__: In \`optimize.basinhopping\`, the target acceptance rate should... * `#10497 <https://github.com/scipy/scipy/issues/10497>`__: scipy.sparse.csc_matrix.toarray docstring is wrong * `#10888 <https://github.com/scipy/scipy/issues/10888>`__: Check finite difference gradient approximation in a random direction * `#10974 <https://github.com/scipy/scipy/issues/10974>`__: Non explicit error message in lobpcg * `#11452 <https://github.com/scipy/scipy/issues/11452>`__: Normalisation requirement for \`Wn\` unclear in \`scipy.signal.butter\` * `#11700 <https://github.com/scipy/scipy/issues/11700>`__: solve_ivp errors out instead of simply quitting after the solve... * `#12006 <https://github.com/scipy/scipy/issues/12006>`__: newton: Shouldn't it take a Jacobian for multivariate problems... * `#12100 <https://github.com/scipy/scipy/issues/12100>`__: solve_ivp: custom t_eval list and the terminating event * `#12192 <https://github.com/scipy/scipy/issues/12192>`__: \`scipy.stats.rv_continuous.moment\` does not accept array input * `#12502 <https://github.com/scipy/scipy/issues/12502>`__: Divide by zero in Jacobian numerical differentiation when equality... * `#12981 <https://github.com/scipy/scipy/issues/12981>`__: SLSQP constrained minimization error in 1.5.2 * `#12999 <https://github.com/scipy/scipy/issues/12999>`__: Bug in scipy.stats.ks_2samp for two-sided auto and exact modes... * `#13402 <https://github.com/scipy/scipy/issues/13402>`__: ENH: Faster Max Flow algorithm in scipy.sparse.csgraph * `#13580 <https://github.com/scipy/scipy/issues/13580>`__: truncnorm gives incorrect means and variances * `#13642 <https://github.com/scipy/scipy/issues/13642>`__: stats.truncnorm variance works incorrectly when input is an array. * `#13659 <https://github.com/scipy/scipy/issues/13659>`__: Orthogonal Array for Latin hypercube in \`scipy.stats.qmc\` * `#13737 <https://github.com/scipy/scipy/issues/13737>`__: brentq can overflow / underflow * `#13745 <https://github.com/scipy/scipy/issues/13745>`__: different default atol, btol for lsqr, lsmr * `#13898 <https://github.com/scipy/scipy/issues/13898>`__: Savitzky-Golay filter for even number data * `#13902 <https://github.com/scipy/scipy/issues/13902>`__: Different solvers of \`svds\` return quite different results * `#13922 <https://github.com/scipy/scipy/issues/13922>`__: Need Exception / Error for Incorrect and/or misleading analog... * `#14122 <https://github.com/scipy/scipy/issues/14122>`__: Item assignement for spatial.transform.Rotation objects * `#14140 <https://github.com/scipy/scipy/issues/14140>`__: Likely unnecessary invalid value warning from PchipInterpolator * `#14152 <https://github.com/scipy/scipy/issues/14152>`__: zpk2sos not working correctly when butterworth band-pass filter... * `#14165 <https://github.com/scipy/scipy/issues/14165>`__: scipy.optimize.minimize method='Nelder-Mead': 'maxfev' is not... * `#14168 <https://github.com/scipy/scipy/issues/14168>`__: Missing "inverse" word in the multidimensional Discrete Cosine/Sine... * `#14189 <https://github.com/scipy/scipy/issues/14189>`__: Incorrect shape handling in \`scipy.stat.multivariate_t.rvs\`... * `#14190 <https://github.com/scipy/scipy/issues/14190>`__: Links in documentation of Dirichlet distribution are a mess * `#14193 <https://github.com/scipy/scipy/issues/14193>`__: Implementation of scrambled Van der Corput sequence differs from... * `#14217 <https://github.com/scipy/scipy/issues/14217>`__: Error in documentation for \`scipy.stats.gaussian_kde.factor\` * `#14235 <https://github.com/scipy/scipy/issues/14235>`__: Should this be $y$ only, instead of $m_y$? * `#14236 <https://github.com/scipy/scipy/issues/14236>`__: BUG: discrete isf is wrong at boundary if loc != 0 * `#14277 <https://github.com/scipy/scipy/issues/14277>`__: Broken reference in docstring of scipy.stats.power_divergence * `#14324 <https://github.com/scipy/scipy/issues/14324>`__: BUG: scipy.stats.theilslopes intercept calculation can produce... * `#14332 <https://github.com/scipy/scipy/issues/14332>`__: Strange output of \`binned_statistic_dd\` with \`statistic=sum\` * `#14340 <https://github.com/scipy/scipy/issues/14340>`__: Initialize Rotation using list or array of Rotations * `#14346 <https://github.com/scipy/scipy/issues/14346>`__: scipy.stats.rv_continuous.fit returns wrapper instead of fit... * `#14360 <https://github.com/scipy/scipy/issues/14360>`__: Making clearer what namespaces are public by use of underscores * `#14385 <https://github.com/scipy/scipy/issues/14385>`__: csgraph.maximum_flow can cause Python crash for large but very... * `#14409 <https://github.com/scipy/scipy/issues/14409>`__: Lagrange polynomials and numpy Polynomials * `#14412 <https://github.com/scipy/scipy/issues/14412>`__: Extra function arguments to \`scipy.integrate.quad_vec\` * `#14416 <https://github.com/scipy/scipy/issues/14416>`__: Is the r-value outputted by scipy.stats.linregress always the... * `#14425 <https://github.com/scipy/scipy/issues/14425>`__: Running tests in parallel is not any faster than without pytest-xdist... * `#14445 <https://github.com/scipy/scipy/issues/14445>`__: BUG: out of bounds indexing issue in \`prini.f\` * `#14482 <https://github.com/scipy/scipy/issues/14482>`__: Azure CI jobs do not set exit status for build stage correctly * `#14491 <https://github.com/scipy/scipy/issues/14491>`__: MAINT: Replace np.rollaxis with np.moveaxis * `#14501 <https://github.com/scipy/scipy/issues/14501>`__: runtests.py overrides \`$PYTHONPATH\` * `#14514 <https://github.com/scipy/scipy/issues/14514>`__: linprog kwargs not recognised * `#14529 <https://github.com/scipy/scipy/issues/14529>`__: CI: Azure pipelines don't appear to be running * `#14535 <https://github.com/scipy/scipy/issues/14535>`__: hess option does not work in minimize function * `#14551 <https://github.com/scipy/scipy/issues/14551>`__: Cannot create Compressed sparse column matrix of shape N x N-2 * `#14568 <https://github.com/scipy/scipy/issues/14568>`__: \`stats.norminvgauss\` incorrect implementation? * `#14585 <https://github.com/scipy/scipy/issues/14585>`__: DOC: toolchain updates and max Python * `#14607 <https://github.com/scipy/scipy/issues/14607>`__: scipy.sparse.linalg.inv cannot take ndarray as argument despite... * `#14608 <https://github.com/scipy/scipy/issues/14608>`__: BUG: scipy.stats.multivariate_t distribution math documentation * `#14623 <https://github.com/scipy/scipy/issues/14623>`__: BUG: Error constructing sparse matrix with indices larger than... * `#14654 <https://github.com/scipy/scipy/issues/14654>`__: DOC: Linux Devdocs workflow requires installing packages that... * `#14680 <https://github.com/scipy/scipy/issues/14680>`__: BUG: misleading documentation in scipy.stats.entropy * `#14683 <https://github.com/scipy/scipy/issues/14683>`__: DOC: OptimizeResult Notes are placed before attribute section,... * `#14733 <https://github.com/scipy/scipy/issues/14733>`__: BUG: resample_poly does not preserve dtype * `#14746 <https://github.com/scipy/scipy/issues/14746>`__: site.cfg: [ALL] or [DEFAULT]? * `#14770 <https://github.com/scipy/scipy/issues/14770>`__: BUG: lpmn ref broken link * `#14807 <https://github.com/scipy/scipy/issues/14807>`__: BUG: wrong weights of the 7-point gauss rule in QUADPACK: dqk15w.f * `#14830 <https://github.com/scipy/scipy/issues/14830>`__: do CDF inversion methods have to be public? * `#14859 <https://github.com/scipy/scipy/issues/14859>`__: BUG: constraint function is overwritten when equal bounds are... * `#14873 <https://github.com/scipy/scipy/issues/14873>`__: ENH: get the driver used in scipy.linalg.eigh * `#14879 <https://github.com/scipy/scipy/issues/14879>`__: BUG: TNC output is different if a callback is used. * `#14891 <https://github.com/scipy/scipy/issues/14891>`__: DOC: \`directed_hausdorff\` expects 2D array despite docs stating... * `#14910 <https://github.com/scipy/scipy/issues/14910>`__: \`stats.contingency\` not listed as public API * `#14911 <https://github.com/scipy/scipy/issues/14911>`__: MAINT, DOC: CI failure for doc building * `#14942 <https://github.com/scipy/scipy/issues/14942>`__: DOC: Ambiguous command instruction for running tests in Mac docs * `#14984 <https://github.com/scipy/scipy/issues/14984>`__: BUG: scipy.sparse.linalg.spsolve: runtime memory error caused... * `#14987 <https://github.com/scipy/scipy/issues/14987>`__: ENH: The knot interval lookup for BSpline.design_matrix is inefficient * `#15025 <https://github.com/scipy/scipy/issues/15025>`__: Might be j<=i+k? * `#15033 <https://github.com/scipy/scipy/issues/15033>`__: BUG: scipy.fft.dct type I with norm = "ortho" leads to wrong... * `#15051 <https://github.com/scipy/scipy/issues/15051>`__: BUG: test failures on aarch in wheel builder repo * `#15064 <https://github.com/scipy/scipy/issues/15064>`__: MAINT: \`interpolation\` keyword is renamed to \`method\` in... * `#15103 <https://github.com/scipy/scipy/issues/15103>`__: BUG: scipy.stats.chi.mean returns nan for large df due to use... ************************** Pull requests for 1.8.0 ************************** * `#4607 <https://github.com/scipy/scipy/pull/4607>`__: Add Chirp Z-transform, zoom FFT * `#10504 <https://github.com/scipy/scipy/pull/10504>`__: ENH: Carlson symmetric elliptic integrals. * `#11263 <https://github.com/scipy/scipy/pull/11263>`__: MAINT:optimize: Comply with user-specified rel_step * `#11754 <https://github.com/scipy/scipy/pull/11754>`__: ENH: stats: Updates to \`variation\`. * `#11954 <https://github.com/scipy/scipy/pull/11954>`__: ENH: improve ARGUS rv generation in scipy.stats * `#12146 <https://github.com/scipy/scipy/pull/12146>`__: DOC: add docs to explain behaviour of newton's mehod on arrays * `#12197 <https://github.com/scipy/scipy/pull/12197>`__: BUG: fix moments method to support arrays and list * `#12889 <https://github.com/scipy/scipy/pull/12889>`__: MAINT: deal with cases in \`minimize\` for \`(bounds.lb == bounds.ub).any() * `#13002 <https://github.com/scipy/scipy/pull/13002>`__: ENH: add tukey_hsd to scipy.stats * `#13096 <https://github.com/scipy/scipy/pull/13096>`__: BUG: optimize: alternative fix for minimize issues with lb==ub * `#13143 <https://github.com/scipy/scipy/pull/13143>`__: MAINT: deal with cases in \`minimize\` for \`(bounds.lb == bounds.ub).any()... * `#13229 <https://github.com/scipy/scipy/pull/13229>`__: ENH: modernise some Fortran code, needed for nagfor compiler * `#13312 <https://github.com/scipy/scipy/pull/13312>`__: ENH: stats: add \`axis\` and \`nan_policy\` parameters to functions... * `#13347 <https://github.com/scipy/scipy/pull/13347>`__: CI: bump gcc from 4.8 to 5.x * `#13392 <https://github.com/scipy/scipy/pull/13392>`__: MAINT: streamlined kwargs for minimizer in dual_annealing * `#13419 <https://github.com/scipy/scipy/pull/13419>`__: BUG: Fix group delay singularity check * `#13471 <https://github.com/scipy/scipy/pull/13471>`__: ENH: LHS based OptimalDesign (scipy.stats.qmc) * `#13581 <https://github.com/scipy/scipy/pull/13581>`__: MAINT: stats: fix truncnorm stats with array shapes * `#13839 <https://github.com/scipy/scipy/pull/13839>`__: MAINT: set same tolerance between LSMR and LSQR * `#13864 <https://github.com/scipy/scipy/pull/13864>`__: Array scalar conversion deprecation * `#13883 <https://github.com/scipy/scipy/pull/13883>`__: MAINT: move LSAP maximization handling into solver code * `#13899 <https://github.com/scipy/scipy/pull/13899>`__: ENH: stats: add general permutation hypothesis test * `#13921 <https://github.com/scipy/scipy/pull/13921>`__: BUG: optimize: fix max function call validation for \`minimize\`... * `#13958 <https://github.com/scipy/scipy/pull/13958>`__: ENH: stats: add \`alternative\` to masked version of T-Tests * `#13960 <https://github.com/scipy/scipy/pull/13960>`__: ENH: stats: add \`alternative\` to masked normality tests * `#14007 <https://github.com/scipy/scipy/pull/14007>`__: BUG: Fix root bracketing logic in Brent's method (issue #13737) * `#14024 <https://github.com/scipy/scipy/pull/14024>`__: ENH: Add annotations for \`scipy.spatial.cKDTree\` * `#14049 <https://github.com/scipy/scipy/pull/14049>`__: MAINT: Change special.orthogonal.orthopoly1d type hints to ArrayLike * `#14132 <https://github.com/scipy/scipy/pull/14132>`__: DOC: badge with version of the doc in the navbar * `#14144 <https://github.com/scipy/scipy/pull/14144>`__: REL: set version to 1.8.0.dev0 * `#14151 <https://github.com/scipy/scipy/pull/14151>`__: BLD: update pyproject.toml - add macOS M1, drop py36 * `#14153 <https://github.com/scipy/scipy/pull/14153>`__: BUG: stats: Implementing boost's hypergeometric distribution... * `#14160 <https://github.com/scipy/scipy/pull/14160>`__: ENH: sparse.linalg: Add TFQMR algorithm for non-Hermitian sparse... * `#14163 <https://github.com/scipy/scipy/pull/14163>`__: BENCH: add benchmark for energy_distance and wasserstein_distance * `#14173 <https://github.com/scipy/scipy/pull/14173>`__: BUG: Fixed an issue wherein \`geometric_slerp\` would return... * `#14174 <https://github.com/scipy/scipy/pull/14174>`__: ENH: Add annotations to \`scipy.spatial.geometric_slerp\` * `#14183 <https://github.com/scipy/scipy/pull/14183>`__: DOC: add examples/ update mstats doc of pearsonr in scipy.stats * `#14186 <https://github.com/scipy/scipy/pull/14186>`__: TST, MAINT: hausdorff test cleanups * `#14187 <https://github.com/scipy/scipy/pull/14187>`__: DOC: interpolate: rbf has kwargs too. * `#14191 <https://github.com/scipy/scipy/pull/14191>`__: MAINT:TST:linalg modernize the test assertions * `#14192 <https://github.com/scipy/scipy/pull/14192>`__: BUG: stats: fix shape handing in multivariate_t.rvs * `#14197 <https://github.com/scipy/scipy/pull/14197>`__: CI: azure: Fix handling of 'skip azp'. * `#14200 <https://github.com/scipy/scipy/pull/14200>`__: DOC: Remove link to alpha in scipy.stats.dirichlet * `#14201 <https://github.com/scipy/scipy/pull/14201>`__: TST: cleanup in lsqr and lsmr tests * `#14204 <https://github.com/scipy/scipy/pull/14204>`__: Improve error message for index dimension * `#14208 <https://github.com/scipy/scipy/pull/14208>`__: MAINT: add invalid='ignore' to np.errstate block in PchipInterpolator * `#14209 <https://github.com/scipy/scipy/pull/14209>`__: ENH: stats: kendalltau: add alternative parameter * `#14210 <https://github.com/scipy/scipy/pull/14210>`__: BUG: Fix Nelder-Mead logic when using a non-1D x0 and adapative * `#14211 <https://github.com/scipy/scipy/pull/14211>`__: Fixed doc for gaussian_kde (kde.factor description) * `#14213 <https://github.com/scipy/scipy/pull/14213>`__: ENH: stats: somersd: add alternative parameter * `#14214 <https://github.com/scipy/scipy/pull/14214>`__: ENH: Improve the \`scipy.spatial.qhull\` annotations * `#14215 <https://github.com/scipy/scipy/pull/14215>`__: ENH: stats: Integrate library UNU.RAN in \`scipy.stats\` [GSoC... * `#14218 <https://github.com/scipy/scipy/pull/14218>`__: DOC: clarify \`ndimage.center_of_mass\` docstring * `#14219 <https://github.com/scipy/scipy/pull/14219>`__: ENH: sparse.linalg: Use the faster "sqrt" from "math" and be... * `#14222 <https://github.com/scipy/scipy/pull/14222>`__: MAINT: stats: remove unused 'type: ignore' comment * `#14224 <https://github.com/scipy/scipy/pull/14224>`__: MAINT: Modify to use new random API in benchmarks * `#14225 <https://github.com/scipy/scipy/pull/14225>`__: MAINT: fix missing LowLevelCallable in \`dir(scipy)\` * `#14226 <https://github.com/scipy/scipy/pull/14226>`__: BLD: fix warning for missing dependency, and dev version number * `#14227 <https://github.com/scipy/scipy/pull/14227>`__: MAINT: fix maybe-uninitialized warnings in lbfgbf.f * `#14228 <https://github.com/scipy/scipy/pull/14228>`__: BENCH: add more benchmarks for inferential statistics tests * `#14237 <https://github.com/scipy/scipy/pull/14237>`__: Removes unused variable * `#14240 <https://github.com/scipy/scipy/pull/14240>`__: ENH: sparse.linalg: Normalize type descriptions * `#14242 <https://github.com/scipy/scipy/pull/14242>`__: BUG: stats: fix discrete \`.isf\` to work at boundaries when... * `#14250 <https://github.com/scipy/scipy/pull/14250>`__: Error in parameter checking in cdfbin.f * `#14254 <https://github.com/scipy/scipy/pull/14254>`__: BUG: Fixed an issue wherein \`SphericalVoronoi\` could raise... * `#14255 <https://github.com/scipy/scipy/pull/14255>`__: BUG: Numerical stability for large N BarycentricInterpolator * `#14257 <https://github.com/scipy/scipy/pull/14257>`__: MAINT: Fixed deprecated API calls in scipy.optimize * `#14258 <https://github.com/scipy/scipy/pull/14258>`__: DOC: fix stats.pearsonr example that was failing in CI * `#14259 <https://github.com/scipy/scipy/pull/14259>`__: CI: pin mypy to 0.902 and fix one CI failure * `#14260 <https://github.com/scipy/scipy/pull/14260>`__: BLD: optimize: fix some warnings in moduleTNC and minpack.h * `#14261 <https://github.com/scipy/scipy/pull/14261>`__: BLD: fix include order and build warnings for \`optimize/_trlib\` * `#14263 <https://github.com/scipy/scipy/pull/14263>`__: DOC: forward port 1.7.0 relnotes * `#14268 <https://github.com/scipy/scipy/pull/14268>`__: MAINT: Replaced direct field access in PyArrayObject\* with wrapper... * `#14274 <https://github.com/scipy/scipy/pull/14274>`__: MAINT: more scalar array conversion fixes for optimize * `#14275 <https://github.com/scipy/scipy/pull/14275>`__: MAINT: Update vendored uarray, required for auto-dispatching * `#14278 <https://github.com/scipy/scipy/pull/14278>`__: MAINT: two small fixes for implicit scalar-array-conversions * `#14281 <https://github.com/scipy/scipy/pull/14281>`__: ENH: Annotate the array dtypes of \`scipy.spatial.qhull\` * `#14285 <https://github.com/scipy/scipy/pull/14285>`__: DEV: remove scikit-umfpack from environment.yml * `#14287 <https://github.com/scipy/scipy/pull/14287>`__: TST: Add testing for hyp2f1 for complex values in anticipation... * `#14291 <https://github.com/scipy/scipy/pull/14291>`__: TST: split combined LSAP input validation tests up * `#14293 <https://github.com/scipy/scipy/pull/14293>`__: MAINT: remove the last deprecated \`PyEval_\*\` usages * `#14294 <https://github.com/scipy/scipy/pull/14294>`__: ENH: Annotate array dtypes in \`scipy.spatial.ckdtree\` and \`distance\` * `#14295 <https://github.com/scipy/scipy/pull/14295>`__: MAINT: move LSAP input validation into lsap_module * `#14297 <https://github.com/scipy/scipy/pull/14297>`__: DOC: Make code block an Item List * `#14301 <https://github.com/scipy/scipy/pull/14301>`__: MAINT: fix the last build warning in \`optimize/_trlib/\` * `#14302 <https://github.com/scipy/scipy/pull/14302>`__: BLD: fix build warnings for \`stats/biasedurn\` * `#14305 <https://github.com/scipy/scipy/pull/14305>`__: MAINT: silence warning in odepackmodule.c * `#14308 <https://github.com/scipy/scipy/pull/14308>`__: ENH: use Pythran to speedup somersd and _tau_b * `#14309 <https://github.com/scipy/scipy/pull/14309>`__: BLD: fix build warnings for scipy.special * `#14310 <https://github.com/scipy/scipy/pull/14310>`__: ENH: make epsilon optional in optimize.approx_fprime. * `#14311 <https://github.com/scipy/scipy/pull/14311>`__: MAINT: Corrected NumPy API usage in scipy.spatial * `#14312 <https://github.com/scipy/scipy/pull/14312>`__: ENH: Using random directional derivative to check grad * `#14326 <https://github.com/scipy/scipy/pull/14326>`__: MAINT: Removed redifinition of trace1 in spatial/qhull * `#14328 <https://github.com/scipy/scipy/pull/14328>`__: MAINT: _lib: add __dealloc__ to MessageStream * `#14331 <https://github.com/scipy/scipy/pull/14331>`__: ENH: Complement \`trace\` method of sparse matrices like \`csr_matrix/csc_matrix/coo_matrix\` * `#14338 <https://github.com/scipy/scipy/pull/14338>`__: BUG: fix \`stats.binned_statistic_dd\` issue with values close... * `#14339 <https://github.com/scipy/scipy/pull/14339>`__: TST: fix \`sparse.linalg.spsolve\` test with singular input * `#14341 <https://github.com/scipy/scipy/pull/14341>`__: MAINT: Add missing parenthesis in _nnls.py * `#14342 <https://github.com/scipy/scipy/pull/14342>`__: ENH: make \`savgol_coeffs\`, \`savgol_filter\` work for even... * `#14344 <https://github.com/scipy/scipy/pull/14344>`__: ENH: scipy.interpolate b-splines (design_matrix) * `#14350 <https://github.com/scipy/scipy/pull/14350>`__: MAINT: make fit method of rv_continuous pickleable * `#14358 <https://github.com/scipy/scipy/pull/14358>`__: ENH: Dinic's algorithm for maximum_flow * `#14359 <https://github.com/scipy/scipy/pull/14359>`__: ENH: Set fft backend with try_last=True * `#14362 <https://github.com/scipy/scipy/pull/14362>`__: Use list comprehension * `#14367 <https://github.com/scipy/scipy/pull/14367>`__: BUG: Check for NULL pointer in \`memmove\` * `#14377 <https://github.com/scipy/scipy/pull/14377>`__: Fix behavior of binary morphology with output=input when iterations=1 * `#14378 <https://github.com/scipy/scipy/pull/14378>`__: MAINT: Removing deprecated NumPy C API from \`interpolate\` * `#14380 <https://github.com/scipy/scipy/pull/14380>`__: ENH: Fixed intercept computation in theilslopes * `#14381 <https://github.com/scipy/scipy/pull/14381>`__: BENCH: add benchmark for somersd * `#14387 <https://github.com/scipy/scipy/pull/14387>`__: MAINT: Removed deprecated NumPy C api from \`sparse\` * `#14392 <https://github.com/scipy/scipy/pull/14392>`__: BUG/ENH: rework maximum flow preprocessing * `#14393 <https://github.com/scipy/scipy/pull/14393>`__: CI: Lint checks failures are reporting success * `#14403 <https://github.com/scipy/scipy/pull/14403>`__: Fix off by one error in doc string. * `#14404 <https://github.com/scipy/scipy/pull/14404>`__: DOC: docstring fix for default of n param of interpolate.pade * `#14406 <https://github.com/scipy/scipy/pull/14406>`__: MAINT: Use numpy_nodepr_api in \`spatial\` * `#14411 <https://github.com/scipy/scipy/pull/14411>`__: MAINT: minor cleanups in usage of \`compute_uv\` keyword of \`svd\` * `#14413 <https://github.com/scipy/scipy/pull/14413>`__: DOC:interpolate: Fix the docstring example of "lagrange" * `#14419 <https://github.com/scipy/scipy/pull/14419>`__: DEP: deprecate private but non-underscored \`signal.spline\`... * `#14422 <https://github.com/scipy/scipy/pull/14422>`__: MAINT: csgraph: change Dinic algorithm to iterative implementation * `#14423 <https://github.com/scipy/scipy/pull/14423>`__: CI: remove printing of skipped and xfailed tests from Azure test... * `#14426 <https://github.com/scipy/scipy/pull/14426>`__: ENH: Add args argument for callable in quad_vec * `#14427 <https://github.com/scipy/scipy/pull/14427>`__: MAINT: extra pythran annotation for i686 support * `#14432 <https://github.com/scipy/scipy/pull/14432>`__: BUG/ENH: more stable recursion for 2-sample ks test exact p-values * `#14433 <https://github.com/scipy/scipy/pull/14433>`__: ENH: add PROPACK wrapper for improved sparse SVD * `#14440 <https://github.com/scipy/scipy/pull/14440>`__: MAINT: stats: silence mypy complaints * `#14441 <https://github.com/scipy/scipy/pull/14441>`__: ENH: TST: add a threadpoolctl hook to limit OpenBLAS parallelism * `#14442 <https://github.com/scipy/scipy/pull/14442>`__: MAINT: Fix uninitialized warnings in \`sparse/linalg/dsolve\` * `#14447 <https://github.com/scipy/scipy/pull/14447>`__: MAINT: rename scipy.ndimage modules * `#14449 <https://github.com/scipy/scipy/pull/14449>`__: ENH: Cythonize van der corput * `#14454 <https://github.com/scipy/scipy/pull/14454>`__: MAINT: Begin translation of hyp2f1 for complex numbers into Cython * `#14456 <https://github.com/scipy/scipy/pull/14456>`__: CI: Lint with flake8 instead of pyflakes + pycodestyle * `#14458 <https://github.com/scipy/scipy/pull/14458>`__: DOC: clarify meaning of rvalue in stats.linregress * `#14459 <https://github.com/scipy/scipy/pull/14459>`__: MAINT: Fix uninitialized warnings in \`interpolate\` and \`cluster\` * `#14463 <https://github.com/scipy/scipy/pull/14463>`__: Fix typo in doc overview: "pandas" to "SciPy" * `#14474 <https://github.com/scipy/scipy/pull/14474>`__: DEP: Deprecate private but non-underscored ndimage.<module> namespace * `#14477 <https://github.com/scipy/scipy/pull/14477>`__: MAINT: Using Tempita file for bspline (signal) * `#14479 <https://github.com/scipy/scipy/pull/14479>`__: Added \`Inverse\` word in \`idstn\` and \`idctn\` docstrings * `#14487 <https://github.com/scipy/scipy/pull/14487>`__: TST: modify flaky test for constrained minimization * `#14489 <https://github.com/scipy/scipy/pull/14489>`__: MAINT: cleanup of some line_search code * `#14492 <https://github.com/scipy/scipy/pull/14492>`__: CI: make sure Azure job step fails when building a SciPy wheel... * `#14496 <https://github.com/scipy/scipy/pull/14496>`__: MAINT: switch to using spmatrix.toarray instead of .todense * `#14499 <https://github.com/scipy/scipy/pull/14499>`__: DOC: fix toarray/todense docstring * `#14507 <https://github.com/scipy/scipy/pull/14507>`__: CI: Add lint_diff docs & option to run only on specified files/dirs * `#14513 <https://github.com/scipy/scipy/pull/14513>`__: DOC: added reference and example in jacobi docstring * `#14520 <https://github.com/scipy/scipy/pull/14520>`__: BUG: diffev maxfun can be reached partway through population * `#14524 <https://github.com/scipy/scipy/pull/14524>`__: ENH: Rotation.concatenate * `#14532 <https://github.com/scipy/scipy/pull/14532>`__: ENH: sparse.linalg: The solution is zero when R.H.S. is zero * `#14538 <https://github.com/scipy/scipy/pull/14538>`__: CI: Revert "CI: make sure Azure job step fails when building... * `#14539 <https://github.com/scipy/scipy/pull/14539>`__: DOC: added chebyt and chebyu docstring examples in scipy.special * `#14546 <https://github.com/scipy/scipy/pull/14546>`__: ENH: Orthogonal Latin Hypercube Sampling to QMC * `#14547 <https://github.com/scipy/scipy/pull/14547>`__: ENH: __setitem__ method for Rotation class * `#14549 <https://github.com/scipy/scipy/pull/14549>`__: Small test fixes for pypy + win + mmap * `#14554 <https://github.com/scipy/scipy/pull/14554>`__: ENH: scipy.interpolate.BSpline from_power_basis * `#14555 <https://github.com/scipy/scipy/pull/14555>`__: BUG: sparse: fix a DIA.tocsc bug * `#14556 <https://github.com/scipy/scipy/pull/14556>`__: Fix the link to details of the strongly connected components... * `#14559 <https://github.com/scipy/scipy/pull/14559>`__: WIP: TST: add tests for Pythran somersd * `#14561 <https://github.com/scipy/scipy/pull/14561>`__: DOC: added reference and examples in (gen)laguerre docstring... * `#14564 <https://github.com/scipy/scipy/pull/14564>`__: ENH: Add threaded Van Der Corput * `#14571 <https://github.com/scipy/scipy/pull/14571>`__: Fix repeated word in _mannwhitneyu.py example * `#14572 <https://github.com/scipy/scipy/pull/14572>`__: Set min length of the knot array for BSpline.design_matrix * `#14578 <https://github.com/scipy/scipy/pull/14578>`__: DOC: added examples in spherical Bessel docstrings * `#14581 <https://github.com/scipy/scipy/pull/14581>`__: MAINT: Refactor \`linalg.tests.test_interpolative::TestInterpolativeDecomposition::test_id\` * `#14588 <https://github.com/scipy/scipy/pull/14588>`__: ENH: Added \`\`kulczynski1\`\` to \`\`scipy.spatial.distance\`\` * `#14592 <https://github.com/scipy/scipy/pull/14592>`__: DOC: clarify parameters of norminvgauss in scipy.stats * `#14595 <https://github.com/scipy/scipy/pull/14595>`__: Removing unused subroutines in \`\`scipy/linalg/src/id_dist/src/prini.f\`\` * `#14601 <https://github.com/scipy/scipy/pull/14601>`__: Fixed inconsistencies between numpy and scipy interp * `#14602 <https://github.com/scipy/scipy/pull/14602>`__: MAINT: Fix \`-Wunused-result\` warnings in \`sparse/linalg/dsolve\` * `#14603 <https://github.com/scipy/scipy/pull/14603>`__: DEV: initialize all submodules in Gitpod Dockerfile * `#14609 <https://github.com/scipy/scipy/pull/14609>`__: MAINT: Fix \`-Wmaybe-uninitialized\` warnings in \`optimize/_highs\` * `#14610 <https://github.com/scipy/scipy/pull/14610>`__: MAINT: Ignored \`\`scipy/signal/bspline_util.c\`\` * `#14613 <https://github.com/scipy/scipy/pull/14613>`__: MAINT: interpolate: Declare type for a Cython indexing variable. * `#14619 <https://github.com/scipy/scipy/pull/14619>`__: ENH: stats.unuran: add Polynomial interpolation based numerical... * `#14620 <https://github.com/scipy/scipy/pull/14620>`__: CI: fix Azure job which uses pre-release wheels + Python 3.7 * `#14625 <https://github.com/scipy/scipy/pull/14625>`__: ENH: optimize min max and median scipy.stats.binned_statistic * `#14626 <https://github.com/scipy/scipy/pull/14626>`__: MAINT: fix type-narrowing addition in sparse.construct.bmat * `#14627 <https://github.com/scipy/scipy/pull/14627>`__: MAINT: Bumped tolerances to pass \`\`special.tests\`\` on Apple... * `#14628 <https://github.com/scipy/scipy/pull/14628>`__: DOC: clarify usage of options param in scipy.optimize.linprog * `#14629 <https://github.com/scipy/scipy/pull/14629>`__: ENH: optimize std in scipy.stats.binned_statistic * `#14630 <https://github.com/scipy/scipy/pull/14630>`__: DOC: add citation file * `#14631 <https://github.com/scipy/scipy/pull/14631>`__: Fix unuran builds for older compilers * `#14633 <https://github.com/scipy/scipy/pull/14633>`__: BUG: scipy.stats._unran: send only strings to include_dirs * `#14634 <https://github.com/scipy/scipy/pull/14634>`__: DOC: Fix Wikipedia bootstrap link * `#14635 <https://github.com/scipy/scipy/pull/14635>`__: DOC: stats: fix multivariate_t docs pdf eqn * `#14637 <https://github.com/scipy/scipy/pull/14637>`__: MAINT: copy discrete dist dict * `#14643 <https://github.com/scipy/scipy/pull/14643>`__: MAINT: address gh6019, disp for minimize_scalar * `#14644 <https://github.com/scipy/scipy/pull/14644>`__: DOC: stats: add UNU.RAN references in the tutorial * `#14649 <https://github.com/scipy/scipy/pull/14649>`__: DOC: clarify SciPy compatibility with Python and NumPy. * `#14655 <https://github.com/scipy/scipy/pull/14655>`__: MAINT: remove support for Python 3.7 (hence NumPy 1.16) * `#14656 <https://github.com/scipy/scipy/pull/14656>`__: MAINT: replacing ``assert_`` with assert * `#14658 <https://github.com/scipy/scipy/pull/14658>`__: DOC: use conda-forge in Ubuntu quickstart * `#14660 <https://github.com/scipy/scipy/pull/14660>`__: MAINT: refactor "for ... in range(len(" statements * `#14663 <https://github.com/scipy/scipy/pull/14663>`__: MAINT: update leftover Python and NumPy version from pyproject.toml * `#14665 <https://github.com/scipy/scipy/pull/14665>`__: BLD: fix confusing "import pip" failure that should be caught * `#14666 <https://github.com/scipy/scipy/pull/14666>`__: MAINT: remove unnecessary seeding and update \`check_random_state\` * `#14669 <https://github.com/scipy/scipy/pull/14669>`__: ENH: Refactor GitHub Issue form templates * `#14673 <https://github.com/scipy/scipy/pull/14673>`__: BLD: fix include order, Python.h before standard headers * `#14676 <https://github.com/scipy/scipy/pull/14676>`__: BUG: Fixes failing benchmark tests optimize_qap.QuadraticAssignment.track_score * `#14677 <https://github.com/scipy/scipy/pull/14677>`__: MAINT: github labeler on file paths * `#14682 <https://github.com/scipy/scipy/pull/14682>`__: DOC: Fix typo in mannwhitneyu docstring * `#14684 <https://github.com/scipy/scipy/pull/14684>`__: DOC: optimize: fix sporadic linprog doctest failure * `#14685 <https://github.com/scipy/scipy/pull/14685>`__: MAINT: static typing of entropy * `#14686 <https://github.com/scipy/scipy/pull/14686>`__: BUG: fix issue in lsqr.py introduced in a recent commit * `#14689 <https://github.com/scipy/scipy/pull/14689>`__: MAINT: replace IOError alias with OSError or other appropriate... * `#14692 <https://github.com/scipy/scipy/pull/14692>`__: MAINT: Translation of hyp2f1 for complex numbers into Cython,... * `#14693 <https://github.com/scipy/scipy/pull/14693>`__: DOC: update OptimizeResult notes * `#14694 <https://github.com/scipy/scipy/pull/14694>`__: Simplify PythranBuildExt usage * `#14695 <https://github.com/scipy/scipy/pull/14695>`__: BLD: bump Pythran version to 0.9.12 * `#14697 <https://github.com/scipy/scipy/pull/14697>`__: CI: add \`cffi\` in the benchmark CI job, and in environment.yml * `#14699 <https://github.com/scipy/scipy/pull/14699>`__: BUG: Fix TypeError in \`stats._discrete_distns\` * `#14700 <https://github.com/scipy/scipy/pull/14700>`__: DOC: update detailed roadmap * `#14701 <https://github.com/scipy/scipy/pull/14701>`__: ENH:linalg: Add Cythonized get_array_bandwidth, issymmetric,... * `#14706 <https://github.com/scipy/scipy/pull/14706>`__: BUG: Fix hyp2f1 to return correct values in regions near exp(±iπ/3). * `#14707 <https://github.com/scipy/scipy/pull/14707>`__: Update constants.py * `#14708 <https://github.com/scipy/scipy/pull/14708>`__: BENCH: shorten svds benchmark that is timing out in CI * `#14709 <https://github.com/scipy/scipy/pull/14709>`__: CI: remove labeler sync * `#14712 <https://github.com/scipy/scipy/pull/14712>`__: MAINT: special: Updates for _cosine.c. * `#14720 <https://github.com/scipy/scipy/pull/14720>`__: DOC: optimize hess and consistency * `#14721 <https://github.com/scipy/scipy/pull/14721>`__: MAINT: correct PR template link * `#14723 <https://github.com/scipy/scipy/pull/14723>`__: DOC: add note on padding to \`stats.binned_statistic_2d\` docs * `#14727 <https://github.com/scipy/scipy/pull/14727>`__: ENH: sparse.linalg: Add an useful nonzero initial guess option * `#14729 <https://github.com/scipy/scipy/pull/14729>`__: DOC: fix documentation for scipy.optimize.brenth * `#14737 <https://github.com/scipy/scipy/pull/14737>`__: BUG:signal: matching window dtype to input * `#14739 <https://github.com/scipy/scipy/pull/14739>`__: TST: sparse.linalg: Add test case with 2-D Poisson equations * `#14743 <https://github.com/scipy/scipy/pull/14743>`__: TST:sparse.linalg: Use the more convenient "assert_normclose"... * `#14748 <https://github.com/scipy/scipy/pull/14748>`__: DOC: fix matrix representation in scipy.sparse.csgraph * `#14751 <https://github.com/scipy/scipy/pull/14751>`__: ENH: numpy masked_arrays in refguide-check * `#14755 <https://github.com/scipy/scipy/pull/14755>`__: BUG: Avoid \`solve_ivp\` failure when \`ts\` is empty * `#14756 <https://github.com/scipy/scipy/pull/14756>`__: MAINT: LinAlgError from public numpy.linalg * `#14759 <https://github.com/scipy/scipy/pull/14759>`__: BLD: change section name in site.cfg.example from ALL to DEFAULT * `#14760 <https://github.com/scipy/scipy/pull/14760>`__: TST: suppress jinja2 deprecation warning * `#14761 <https://github.com/scipy/scipy/pull/14761>`__: CI: remove \`pre_release_deps_source_dist\` job from Azure CI... * `#14762 <https://github.com/scipy/scipy/pull/14762>`__: TST: add a seed to the pickling test of RBFInterpolator * `#14763 <https://github.com/scipy/scipy/pull/14763>`__: MAINT: Make solve_ivp slightly more strict wrt. t_span. * `#14772 <https://github.com/scipy/scipy/pull/14772>`__: DOC:special: Fix broken links to jburkardt * `#14787 <https://github.com/scipy/scipy/pull/14787>`__: MAINT: Increase tolerance values to avoid test failures * `#14789 <https://github.com/scipy/scipy/pull/14789>`__: MAINT: fix a tiny typo in signal/spectral.py * `#14790 <https://github.com/scipy/scipy/pull/14790>`__: [MRG] BUG: Avoid lobpcg failure when iterations can't continue * `#14794 <https://github.com/scipy/scipy/pull/14794>`__: Fix typos in bspline docs (and comments) * `#14796 <https://github.com/scipy/scipy/pull/14796>`__: MAINT: Allow F401 and F403 in module init files * `#14798 <https://github.com/scipy/scipy/pull/14798>`__: BUG: correct the test loop in test_arpack.eval_evec * `#14801 <https://github.com/scipy/scipy/pull/14801>`__: CI, MAINT: pin Cython for azure pre-rel * `#14805 <https://github.com/scipy/scipy/pull/14805>`__: BUG: optimize: fix max function call validation for minimize... * `#14808 <https://github.com/scipy/scipy/pull/14808>`__: Fix Bug #14807 * `#14814 <https://github.com/scipy/scipy/pull/14814>`__: MAINT:integrate: add upstream quadpack changes * `#14817 <https://github.com/scipy/scipy/pull/14817>`__: ENH: stats: add geometric zscore * `#14820 <https://github.com/scipy/scipy/pull/14820>`__: MAINT: Remove \`np.rollaxis\` usage with \`np.moveaxis\` and... * `#14821 <https://github.com/scipy/scipy/pull/14821>`__: DOC: Updated documentation for interp1d * `#14822 <https://github.com/scipy/scipy/pull/14822>`__: Add an array API to scipy.sparse * `#14832 <https://github.com/scipy/scipy/pull/14832>`__: MAINT: py3.10 in more jobs and bump some 3.8 to 3.9 * `#14833 <https://github.com/scipy/scipy/pull/14833>`__: FIX: raise Python OverflowError exception on Boost.Math error * `#14836 <https://github.com/scipy/scipy/pull/14836>`__: Bug fix: dqc25f.f * `#14837 <https://github.com/scipy/scipy/pull/14837>`__: DOC: sparse.linalg: Fixed incorrect comments when the initial... * `#14838 <https://github.com/scipy/scipy/pull/14838>`__: TST: seed a stats test * `#14841 <https://github.com/scipy/scipy/pull/14841>`__: MAINT: Increase tolerances in tests to avoid Nightly CPython3.10... * `#14844 <https://github.com/scipy/scipy/pull/14844>`__: DOC: Add refguide_check option details to runtests.rst * `#14845 <https://github.com/scipy/scipy/pull/14845>`__: DOC: update a type specifier in a docstring in \`radau.py\` * `#14848 <https://github.com/scipy/scipy/pull/14848>`__: Typo "copmlex" * `#14852 <https://github.com/scipy/scipy/pull/14852>`__: DOC: Fix documentation bugs in \`lstsq\` * `#14860 <https://github.com/scipy/scipy/pull/14860>`__: minimize: copy user constraints if parameter is factored out.... * `#14865 <https://github.com/scipy/scipy/pull/14865>`__: BUG: stats: Fix a crash in stats.skew * `#14868 <https://github.com/scipy/scipy/pull/14868>`__: [MRG] BUG: Update lobpcg.py to validate the accuracy and issue... * `#14871 <https://github.com/scipy/scipy/pull/14871>`__: MAINT: removed a pitfall where a built-in name was being shadowed * `#14872 <https://github.com/scipy/scipy/pull/14872>`__: DEP: Deprecate private namespaces in \`scipy.linalg\` * `#14878 <https://github.com/scipy/scipy/pull/14878>`__: TST: bump rtol for equal_bounds * `#14881 <https://github.com/scipy/scipy/pull/14881>`__: DEP: Deprecate private namespaces in \`scipy.special\` * `#14882 <https://github.com/scipy/scipy/pull/14882>`__: BUG: Convert TNC C module to cython * `#14883 <https://github.com/scipy/scipy/pull/14883>`__: DOC:linalg: Clarify driver defaults in eigh * `#14884 <https://github.com/scipy/scipy/pull/14884>`__: BUG: optimize: add missing attributes of \`OptimizeResult\` for... * `#14892 <https://github.com/scipy/scipy/pull/14892>`__: DOC: Correct docs for Hausdorff distance * `#14898 <https://github.com/scipy/scipy/pull/14898>`__: DEP: Deprecate private namespace in \`scipy.stats\` * `#14902 <https://github.com/scipy/scipy/pull/14902>`__: MAINT:linalg: Rename func to "bandwidth" * `#14906 <https://github.com/scipy/scipy/pull/14906>`__: DEP: Deprecate private namespace in \`scipy.constants\` * `#14913 <https://github.com/scipy/scipy/pull/14913>`__: DEP: Deprecate private namespace in \`scipy.fftpack\` * `#14916 <https://github.com/scipy/scipy/pull/14916>`__: DEP: Deprecate \`stats.biasedurn\` and make it private * `#14918 <https://github.com/scipy/scipy/pull/14918>`__: DEP: Deprecate private namespaces in \`\`scipy.interpolate\`\` * `#14919 <https://github.com/scipy/scipy/pull/14919>`__: DEP: Deprecate private namespaces in \`scipy.integrate\` * `#14920 <https://github.com/scipy/scipy/pull/14920>`__: Fix for complex Fresnel * `#14923 <https://github.com/scipy/scipy/pull/14923>`__: DEP: Deprecate private namespaces in \`\`scipy.spatial\`\` * `#14924 <https://github.com/scipy/scipy/pull/14924>`__: Fix extent for scipy.signal.cwt example * `#14925 <https://github.com/scipy/scipy/pull/14925>`__: MAINT: Ignore build generated files in \`\`scipy.stats\`\` * `#14927 <https://github.com/scipy/scipy/pull/14927>`__: DEP: Deprecate private namespaces in \`scipy.misc\` * `#14928 <https://github.com/scipy/scipy/pull/14928>`__: MAINT: fix runtest.py overriding \`$PYTHONPATH\`: prepend instead * `#14934 <https://github.com/scipy/scipy/pull/14934>`__: BUG: optimize: add a missing attribute of OptimizeResult in \`basinhopping\` * `#14939 <https://github.com/scipy/scipy/pull/14939>`__: DEP: Deprecate private namespaces in \`\`scipy.sparse\`\` * `#14941 <https://github.com/scipy/scipy/pull/14941>`__: ENH: optimize: add optional parameters of adaptive step size... * `#14943 <https://github.com/scipy/scipy/pull/14943>`__: DOC: clarify mac pytest; add blank line * `#14944 <https://github.com/scipy/scipy/pull/14944>`__: BUG: MultivariateNormalQMC with specific QMCEngine remove unneeded... * `#14947 <https://github.com/scipy/scipy/pull/14947>`__: DOC: adding example to decimate function * `#14950 <https://github.com/scipy/scipy/pull/14950>`__: MAINT: Use matmul binary operator in scipy.sparse.linalg * `#14954 <https://github.com/scipy/scipy/pull/14954>`__: DOC: Add missing params to minres docstring. * `#14955 <https://github.com/scipy/scipy/pull/14955>`__: BUG: stats: fix broadcasting behavior of argsreduce * `#14960 <https://github.com/scipy/scipy/pull/14960>`__: Update links for new site * `#14961 <https://github.com/scipy/scipy/pull/14961>`__: CI: use https protocol for git in CircleCI * `#14962 <https://github.com/scipy/scipy/pull/14962>`__: DEP: Deprecate private namespaces in \`scipy.signal\` * `#14963 <https://github.com/scipy/scipy/pull/14963>`__: MAINT: \`integrate.lsoda\` missing in .gitignore * `#14965 <https://github.com/scipy/scipy/pull/14965>`__: DOC: update logo and add favicon. * `#14966 <https://github.com/scipy/scipy/pull/14966>`__: DEP: Deprecate private namespaces in \`\`scipy.optimize\`\` * `#14969 <https://github.com/scipy/scipy/pull/14969>`__: CI: Fixes pyparsing version in doc build * `#14972 <https://github.com/scipy/scipy/pull/14972>`__: Don't put space after directive name. * `#14979 <https://github.com/scipy/scipy/pull/14979>`__: BUG: scipy.sparse.linalg.spsolve: fix memory error caused from... * `#14988 <https://github.com/scipy/scipy/pull/14988>`__: BLD: update pyproject.toml for Python 3.10 * `#14989 <https://github.com/scipy/scipy/pull/14989>`__: ENH: Speed up knot interval lookup for BSpline.design_matrix * `#14992 <https://github.com/scipy/scipy/pull/14992>`__: Pythranized version of _matfuncs_sqrtm * `#14993 <https://github.com/scipy/scipy/pull/14993>`__: MAINT: forward port 1.7.2 relnotes * `#15004 <https://github.com/scipy/scipy/pull/15004>`__: ENH: Make \`get_matfile_version\` and other \`io.matlab\` objects... * `#15007 <https://github.com/scipy/scipy/pull/15007>`__: DOC: add missing "regularized" to \`gammainccinv\` documentation * `#15008 <https://github.com/scipy/scipy/pull/15008>`__: MAINT: restore access to deprecated private namespaces * `#15010 <https://github.com/scipy/scipy/pull/15010>`__: TST: remove fragile test which checks if g77 is linked * `#15013 <https://github.com/scipy/scipy/pull/15013>`__: MAINT: Fix use-after-free bug in Py_FindObjects * `#15018 <https://github.com/scipy/scipy/pull/15018>`__: CI: Work around Sphinx bug * `#15019 <https://github.com/scipy/scipy/pull/15019>`__: Finite Difference Hessian in Scipy Optimize Solvers (Newton-CG) * `#15020 <https://github.com/scipy/scipy/pull/15020>`__: ENH: sparse.linalg: Fixed the issue that the initial guess "x0"... * `#15022 <https://github.com/scipy/scipy/pull/15022>`__: DOC: mitigate newton optimization not converging. * `#15023 <https://github.com/scipy/scipy/pull/15023>`__: CI: Unpin Sphinx * `#15027 <https://github.com/scipy/scipy/pull/15027>`__: DOC: linalg: Fix a small condition doc error * `#15029 <https://github.com/scipy/scipy/pull/15029>`__: DEP: Deprecate private namespaces in \`scipy.sparse.linalg\` * `#15034 <https://github.com/scipy/scipy/pull/15034>`__: DOC: use numpydoc format for C function in \`_superlumodule.c\` * `#15035 <https://github.com/scipy/scipy/pull/15035>`__: MAINT: simplify UNU.RAN api in stats * `#15037 <https://github.com/scipy/scipy/pull/15037>`__: New example for gaussian_filter * `#15040 <https://github.com/scipy/scipy/pull/15040>`__: MAINT: Add test for public API * `#15041 <https://github.com/scipy/scipy/pull/15041>`__: DOC: Add warning to dct documentation about norm='ortho' * `#15045 <https://github.com/scipy/scipy/pull/15045>`__: DOC: update toolchain.rst * `#15053 <https://github.com/scipy/scipy/pull/15053>`__: TST: Add some test skips to get wheel builder CI green again * `#15054 <https://github.com/scipy/scipy/pull/15054>`__: MAINT: Remove wminkowski * `#15055 <https://github.com/scipy/scipy/pull/15055>`__: ENH: allow p>0 for Minkowski distance * `#15061 <https://github.com/scipy/scipy/pull/15061>`__: MAINT:sparse: expm() fix redundant imports * `#15062 <https://github.com/scipy/scipy/pull/15062>`__: MAINT:BLD: Open file in text mode for tempita * `#15066 <https://github.com/scipy/scipy/pull/15066>`__: CI: bump gcc from 4.8 to 6 * `#15067 <https://github.com/scipy/scipy/pull/15067>`__: DOC: Update broken link to SuperLU library. * `#15078 <https://github.com/scipy/scipy/pull/15078>`__: MAINT: update \`stats.iqr\` for deprecated \`np.percentile\`... * `#15083 <https://github.com/scipy/scipy/pull/15083>`__: MAINT: stats: separate UNU.RAN functionality to its own submodule * `#15084 <https://github.com/scipy/scipy/pull/15084>`__: MAINT: Include \`scipy.io.matlab\` in public API * `#15085 <https://github.com/scipy/scipy/pull/15085>`__: ENH: support creation of analog SOS outputs * `#15087 <https://github.com/scipy/scipy/pull/15087>`__: TST: Review \`\`_assert_within_tol\`\` positional arguments * `#15095 <https://github.com/scipy/scipy/pull/15095>`__: MAINT: update gitignore to ignore private directories * `#15099 <https://github.com/scipy/scipy/pull/15099>`__: MAINT: ScalarFunction remember best_x * `#15100 <https://github.com/scipy/scipy/pull/15100>`__: MAINT: Include \`stats.contingency\` in public API * `#15102 <https://github.com/scipy/scipy/pull/15102>`__: ENH: Add orthogonalize argument to DCT/DST * `#15105 <https://github.com/scipy/scipy/pull/15105>`__: MAINT: Add missing imports in deprecated modules * `#15107 <https://github.com/scipy/scipy/pull/15107>`__: BUG: Update chi_gen to use scipy.special.gammaln * `#15109 <https://github.com/scipy/scipy/pull/15109>`__: MAINT: remove NaiveRatioUniforms from scipy.stats * `#15111 <https://github.com/scipy/scipy/pull/15111>`__: ENH: Add special.log_expit and use it in stats.logistic * `#15112 <https://github.com/scipy/scipy/pull/15112>`__: DOC: update 'Wn' definition in signal.butter * `#15114 <https://github.com/scipy/scipy/pull/15114>`__: DOC: added Fermi-Dirac distribution by name * `#15119 <https://github.com/scipy/scipy/pull/15119>`__: DOC: fix symlink to \`logistic.sf\` in \`stats.logistic\` * `#15120 <https://github.com/scipy/scipy/pull/15120>`__: MAINT: Install \`sparse.linalg._eigen\` tests and fix test failures * `#15123 <https://github.com/scipy/scipy/pull/15123>`__: MAINT: interpolate: move the \`sparse\` dependency from cython... * `#15127 <https://github.com/scipy/scipy/pull/15127>`__: DOC: update linux build instructions to mention C++ * `#15134 <https://github.com/scipy/scipy/pull/15134>`__: DOC: Improve Lomb-Scargle example * `#15135 <https://github.com/scipy/scipy/pull/15135>`__: ENH: Carlson symmetric elliptic integrals. * `#15137 <https://github.com/scipy/scipy/pull/15137>`__: DOC: special: Add 'Examples' to multigammaln and 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NumPy 1.22. 0rc2 Release
by Charles R Harris 10 Dec '21

10 Dec '21

Hi All, On behalf of the NumPy team, I'm pleased to announce the release of NumPy 1.22.0rc1. NumPy 1.22.0rc1 is a big release featuring the work of 151 contributers spread over 589 pull requests. There have been many improvements, highlights are: - Annotations of the main namespace are essentially complete. Upstream is a moving target, so there will likely be further improvements, but the major work is done. This is probably the most user visible enhancement in this release. - A preliminary version of the proposed Array-API is provided. This is a step in creating a standard collection of functions that can be used across applications such as CuPy and JAX. - NumPy now has a DLPack backend. DLPack provides a common interchange format for array (tensor) data. - New methods for `quantile`, `percentile`, and related functions. Thenew methods provide a complete set of the methods commonly found in the literature. - A new configurable allocator for use by downstream projects. These are in addition to the ongoing work to provide SIMD support for commonly used functions, improvements to F2PY, and better documentation. The Python versions supported in this release are 3.8-3.10, Python 3.7 has been dropped. Note that 32 bit wheels are only provided for Python 3.8 and 3.9 on Windows, all other wheels are 64 bits on account of Ubuntu, Fedora, and other Linux distributions dropping 32 bit support. All 64 bit wheels are also linked with 64 bit integer OpenBLAS, which should fix the occasional problems encountered by folks using truly huge arrays. Wheels can be downloaded from PyPI <https://pypi.org/project/numpy/1.22.0rc2/>; source archives, release notes, and wheel hashes are available on Github <https://github.com/numpy/numpy/releases/tag/v1.22.0rc2>. Linux users will need pip >= 0.19.3 in order to install the manylinux2014 wheels. A recent version of pip is needed to install the universal2 macos wheels. *Contributors* A total of 151 people contributed to this release. People with a "+" by their names contributed a patch for the first time. - @DWesl - @Illviljan - @h-vetinari - @yan-wyb + - Aaron Meurer - Abel Aoun + - Adrian Gao + - Ahmet Can Solak + - Ajay DS + - Alban Colley + - Alberto Rubiales + - Alessia Marcolini + - Amit Kumar + - Andrei Batomunkuev + - Andrew Watson + - Anirudh Dagar + - Ankit Dwivedi + - Antony Lee - Arfy Slowy + - Arryan Singh + - Arun Palaniappen + - Arushi Sharma + - Bas van Beek - Brent Brewington + - Carl Johnsen + - Carl Michal + - Charles Harris - Chiara Marmo - Chris Fu (傅立业) + - Christoph Buchner + - Christoph Reiter + - Chunlin Fang - Clément Robert + - Constanza Fierro - Damien Caliste - Daniel Ching - David Badnar + - David Cortes + - David Okpare + - Derek Huang + - Developer-Ecosystem-Engineering + - Dima Pasechnik - Dimitri Papadopoulos + - Dmitriy Fishman + - Eero Vaher + - Elias Koromilas + - Eliaz Bobadilla + - Elisha Hollander + - Eric Wieser - Eskild Eriksen + - Evan Miller + - Fayas Noushad + - Gagandeep Singh + - Ganesh Kathiresan - Ghiles Meddour + - Greg Lucas - Gregory R. Lee - Guo Shuai + - Gwyn Ciesla + - Hameer Abbasi - Hector Martin + - Henry Schreiner + - Himanshu + - Hood Chatham + - Hugo Defois + - Hugo van Kemenade - I-Shen Leong + - Imen Rajhi + - Irina Maria Mocan + - Irit Katriel + - Isuru Fernando - Jakob Jakobson - Jerry Morrison + - Jessi J Zhao + - Joe Marshall + - Johan von Forstner + - Jonas I. Liechti + - Jonathan Reichelt Gjertsen + - Joshua Himmens + - Jérome Eertmans - Jérôme Kieffer + - KIU Shueng Chuan + - Kenichi Maehashi - Kenny Huynh + - Kent R. Spillner + - Kevin Granados + - Kevin Modzelewski + - Kevin Sheppard - Lalit Musmade + - Malik Idrees Hasan Khan + - Marco Aurelio da Costa + - Margret Pax + - Mars Lee + - Marten van Kerkwijk - Matthew Barber + - Matthew Brett - Matthias Bussonnier - Matthieu Dartiailh - Matti Picus - Melissa Weber Mendonça - Michael McCann + - Mike Jarvis + - Mike McCann + - Mike Toews - Mukulika Pahari - Nick Pope + - Nick Wogan + - Niels Dunnewind + - Niko Savola + - Nikola Forró - Niyas Sait + - Pamphile ROY - Paul Ganssle + - Pauli Virtanen - Pearu Peterson - Peter Hawkins + - Peter Tillema + - Prathmesh Shirsat + - Raghuveer Devulapalli - Ralf Gommers - Robert Kern - Rohit Goswami + - Ronan Lamy - Ross Barnowski - Roy Jacobson + - Samyak S Sarnayak + - Sayantika Banik + - Sayed Adel - Sebastian Berg - Sebastian Schleehauf + - Serge Guelton - Shriraj Hegde + - Shubham Gupta + - Sista Seetaram + - Stefan van der Walt - Stephannie Jimenez Gacha + - Tania Allard - Theodoros Nikolaou + - Thomas J. Fan - Thomas Li + - Tim Hoffmann - Tom Tan + - Tyler Reddy - Vijay Arora + - Vinith Kishore + - Warren Weckesser - Yang Hau - Yashasvi Misra - Yuval Ofek + - Zac Hatfield-Dodds - Zhang Na + Cheers, Charles Harris

1 0

Announcing NumExpr 2.8.1
by Robert McLeod 10 Dec '21

10 Dec '21

Hi everyone, This is another maintenance release to further modernize our install script for distributions that do not include `setuptools` by default. Thanks to Antonio Valentino for the changes. Project documentation is available at: http://numexpr.readthedocs.io/ Changes from 2.8.0 to 2.8.1 --------------------------- * Fixed dependency list. * Added ``pyproject.toml`` and modernize the ``setup.py`` script. Thanks to Antonio Valentino for the PR. What's Numexpr? --------------- Numexpr is a fast numerical expression evaluator for NumPy. With it, expressions that operate on arrays (like "3*a+4*b") are accelerated and use less memory than doing the same calculation in Python. It has multi-threaded capabilities, as well as support for Intel's MKL (Math Kernel Library), which allows an extremely fast evaluation of transcendental functions (sin, cos, tan, exp, log...) while squeezing the last drop of performance out of your multi-core processors. Look here for a some benchmarks of numexpr using MKL: https://github.com/pydata/numexpr/wiki/NumexprMKL Its only dependency is NumPy (MKL is optional), so it works well as an easy-to-deploy, easy-to-use, computational engine for projects that don't want to adopt other solutions requiring more heavy dependencies. Where I can find Numexpr? ------------------------- The project is hosted at GitHub in: https://github.com/pydata/numexpr You can get the packages from PyPI as well (but not for RC releases): http://pypi.python.org/pypi/numexpr Documentation is hosted at: http://numexpr.readthedocs.io/en/latest/ Share your experience --------------------- Let us know of any bugs, suggestions, gripes, kudos, etc. you may have. Enjoy data! -- Robert McLeod robbmcleod(a)gmail.com robert.mcleod(a)hitachi-hightech.com

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Speeding up __array_function__ by moving to C (interest in pushing that forward?)
by Sebastian Berg 08 Dec '21

08 Dec '21

Hi all, is anyone interested in digging into speeding up __array_function__? I distracted myself briefly looking into moving (more) of it to C and got up with this: https://github.com/numpy/numpy/compare/main...seberg:faster-array-function The effect seems to be an up to 40% speed improvement for very lightweight functions. (There may be more room for improvement but I am not sure how much and it should not be as easy.) I had never really tried this before, because on older Python versions it was just slower/harder to jump between C and Python. That was due to the lack of "vectorcall", now it is all there, although for PyPy it might still need fixups. The main point is moving the object that we replace our functions with (the entry point) to C [1]. This works, but it was a one-evening quick try, so it needs a lot of polishing: * Fixing `like=` for Python defined functions: They are broken, I have one possible approach, but it is just an "idea stage". (should not be hard, but needs a some thought) * Make sure the C entry-point looks and feel right, such as printing (I am not sure what is left to do here, maybe we can find prior art?) * Enable pickling (should be very easy) * Ensure PyPy compatibility if necessary * Change all warning `stacklevel=` to one lower (in wrapped functions). (simple, but a lot of churn) * General code cleanup Thought I would put it out there. It might be a cool and worthwhile project for someone interested in decreasing overheads and familiar with the Python C-API. Cheers, Sebastian [1] This also avoids the need for packing `args` and `kwargs` into a tuple/dict, which is faster, even if we have to pack it again for `__array_function__` (we can avoid it for the NumPy version though). I had wondered if we could evolve `__array_function__` to accept `*args, **kwargs`. I expect this is only useful if `__array_function__` was defined in C though.

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NumPy Community Meeting Wednesday -- Later time!
by Sebastian Berg 07 Dec '21

07 Dec '21

Hi all, There will be a NumPy Community meeting Wednesday December 8th at 19:00 UTC. Everyone is invited and encouraged to join in and edit the work-in-progress meeting topics and notes at: https://hackmd.io/76o-IxCjQX2mOXO_wwkcpg?both Best wishes Sebastian PS: 19:00 UTC is 11am Pacific time

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setuptools re-enabling vendored distutils soon, may break numpy.distutils
by Ralf Gommers 07 Dec '21

07 Dec '21

Hi all, Setuptools is going to re-enable a setting which makes it prefer its vendored copy of distutils over the distutils code in the stdlib in two weeks. If you only use setuptools and not numpy.distutils directly, then you're probably fine. If you do use numpy.distutils, then your build may break. It's recommended you test this now - see https://twitter.com/jaraco/status/1467660250954317827 for how. Note that it's not possible to avoid/fix this kind of breakage in a sensible fashion before it happens. Setuptools is going to be making significant backwards-incompatible changes to distutils, so if you are using numpy.distutils then you should be prepared for regular breakage. If you release your package regularly, then it's recommended you always pin setuptools in your pyproject.toml to the last version that's known to work. Setuptools typically just works and the pin will only affect your own from-source installs. The reason not to pin is if you release very irregularly - your package may then need a newer setuptools for Python 3.11 support in Oct'22 for example. It's a trade-off between avoiding breakage and not getting support for new Python versions and bug fixes. Also note the tracking issues for this build system interaction are at: https://github.com/numpy/numpy/issues/18588 https://github.com/pypa/setuptools/issues/2372 Cheers, Ralf

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Fwd: ndarray should offer __format__ that can adjust precision
by Ivan Gonzalez 03 Dec '21

03 Dec '21

It would be nice to be able to use the Python syntax we already use to format the precision of floating numbers in numpy: >>> a = np.array([-np.pi, np.pi]) >>> print(f"{a:+.2f}") [-3.14 +3.14] This is particularly useful when you have large arrangements. The problem is that if you want to do it today, it is not implemented: >>> print(f"{a:+.2f}") Traceback (most recent call last): File "<stdin>", line 1, in <module> TypeError: unsupported format string passed to numpy.ndarray.__format__ In this PR (https://github.com/numpy/numpy/pull/19550) I propose a very basic formatting implementation for numeric numbers that uses `array2string` just like it currently does `str` At first, since we are only considering formatting the numeric type, floating numbers specifically, we are only interested in being able to change the precision, the sign, and possibly the rounding or truncation. Since the `array2string` function already does everything we need, we only need to implement the` __format__` function of the `ndarray` class which parses a predefined format (similar to the one already used by Python for built-in data types) to indicate the parameters before said. I propose a mini format specification inspired in the [Format Specification Mini-Language](https://docs.python.org/3/library/string.html#formatspec). ``` format_spec ::= [sign][.precision][type] sign ::= "+" | "-" | " " precision ::= [0-9]+ type ::= "f" | "e" ``` We are going to consider only 3 arguments of the `array2string` function:` precision`, `suppress_small`,` sign`. In particular, the `type` token sets the` suppress_small` argument to True when the type is `f` and False when it is `e`. This is in order to mimic Python's behavior in truncating decimals when using the fixed-point notation. As @brandon-rhodes said in gh-5543, the behavior when you try to format an array containing Python objects, the behavior should be the same as Python has implemented by default in the `object` class: ` format (a, "") ` should be equivalent to `str (a)` and `format(a, "not empty")` should raise an exception. What remains to be defined is the behavior when trying to format an array with a non-numeric data type (`np.numeric`) other than `np.object_`. Should we raise an exception? In my opinion yes, since in the future formatting is extended -- for example, for dates -- people are aware that before that was not implemented. I'm open to suggestions. - Ivan

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Announcing NumExpr 2.8.0
by Robert McLeod 02 Dec '21

02 Dec '21

Hi everyone, NumExpr 2.8.0 is released. This is mostly a version bump. We now support Python 3.10 and support for 2.7 and 3.5 has been discontinued. Project documentation is available at: http://numexpr.readthedocs.io/ Changes from 2.7.3 to 2.8.0 --------------------------- * Wheels for Python 3.10 are now provided. * Support for Python 2.7 and 3.5 has been discontinued. * All residual support for Python 2.X syntax has been removed, and therefore the setup build no longer makes calls to the `2to3` script. The `setup.py` has been refactored to be more modern. * The examples on how to link into Intel VML/MKL/oneAPI now use the dynamic library. What's Numexpr? --------------- Numexpr is a fast numerical expression evaluator for NumPy. With it, expressions that operate on arrays (like "3*a+4*b") are accelerated and use less memory than doing the same calculation in Python. It has multi-threaded capabilities, as well as support for Intel's MKL (Math Kernel Library), which allows an extremely fast evaluation of transcendental functions (sin, cos, tan, exp, log...) while squeezing the last drop of performance out of your multi-core processors. Look here for a some benchmarks of numexpr using MKL: https://github.com/pydata/numexpr/wiki/NumexprMKL Its only dependency is NumPy (MKL is optional), so it works well as an easy-to-deploy, easy-to-use, computational engine for projects that don't want to adopt other solutions requiring more heavy dependencies. Where I can find Numexpr? ------------------------- The project is hosted at GitHub in: https://github.com/pydata/numexpr You can get the packages from PyPI as well (but not for RC releases): http://pypi.python.org/pypi/numexpr Documentation is hosted at: http://numexpr.readthedocs.io/en/latest/ Share your experience --------------------- Let us know of any bugs, suggestions, gripes, kudos, etc. you may have. Enjoy data! -- Robert McLeod robbmcleod(a)gmail.com robert.mcleod(a)hitachi-hightech.com

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Newcomer's meeting - later today (4pm UTC)!
by Melissa Mendonça 01 Dec '21

01 Dec '21

Hi all! Sorry for the late notice - our next Newcomer's Meeting is today, * July 15, at 4pm UTC.* This is an informal meeting with no agenda to ask questions, get to know other people and (hopefully) figure out ways to contribute to NumPy. Feel free to join if you are lurking around but found it hard to start contributing - we'll do our best to support you. If you wish to join on Zoom, use this link: https://zoom.us/j/6345425936 Hope to see you around! ** You can click this link to get the correct time at your timezone: https://www.timeanddate.com/worldclock/fixedtime.html?msg=NumPy+Newcomer%27… <https://www.timeanddate.com/worldclock/fixedtime.html?msg=NumPy+Newcomer%27…> *** You can add the NumPy community calendar to your google calendar by clicking this link: https://calendar.google.com/calendar /r?cid=YmVya2VsZXkuZWR1X2lla2dwaWdtMjMyamJobGRzZmIyYzJqODFjQGdyb3VwLmNhbGVuZGFyLmdvb2dsZS5jb20 - Melissa

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NumPy Development Meeting Wednesday - Triage Focus
by Sebastian Berg 30 Nov '21

30 Nov '21

Hi all, Our bi-weekly triage-focused NumPy development meeting is Wednesday, December 1st at 16:30 UTC (8:30am Pacific Time). Everyone is invited to join in and edit the work-in-progress meeting topics and notes: https://hackmd.io/68i_JvOYQfy9ERiHgXMPvg I encourage everyone to notify us of issues or PRs that you feel should be prioritized, discussed, or reviewed. Best regards Sebastian

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